Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018469
Fusion event
HBV-SEMA6B integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1766
Integrated sequence
CTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGG| |TCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTT
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
Start
End
4567083/4567071 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-7702 ; hsa-mir-4524b-3p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-1227-5p ; hsa-mir-1229-3p ; hsa-mir-128-1-5p ; hsa-mir-128-2-5p ; hsa-mir-197-3p ; hsa-mir-3199 ; hsa-mir-3620-3p ; hsa-mir-3622b-5p ; hsa-mir-365a-5p ; hsa-mir-365b-5p ; hsa-mir-4292 ; hsa-mir-4699-3p ; hsa-mir-504-5p ; hsa-mir-6511a-3p ; hsa-mir-6511b-3p ; hsa-mir-6762-5p ; hsa-mir-6784-3p ; hsa-mir-6791-5p ; hsa-mir-6845-5p ; hsa-mir-6852-5p ; hsa-mir-6862-3p ; hsa-mir-7110-3p ; hsa-mir-8052 ; hsa-mir-92b-5p
Nearest miRNA
hsa-mir-1227/Upstream/121023; hsa-let-7e/Downstream/203599;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/405, chr19-CpG: 135/Downstream/13386
Nearby gene
Upstream sequence
CAAAGAAGCATTTGTGGAGCACCTTCTGTGTGCCCCTAGGTACTAGATGCCTGGACGGGGTCAGAAGGACCCTGACCCACCTTGAACTTGTTCCACACAG
Downstream sequence
GTCTATATCCGATGACACCCACCGTCCTGACTGTAGCCAGGCCTCCCCCAGCTCCGGATTCGGGGTTCAACTTCCCCTCAGCCGCTCCAGGCACGGGGCT
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.