Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018608
Fusion event
HBV-SEC24D integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1650
Integrated sequence
CCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGT| |CTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAG
Host Sequence
Chromosome
chr4
Cytoband
q26
Reference genome
End
119754424/118833269 (Hg38)
Location type
Intron21
Target gene
miRNAs that regulate target gene
hsa-mir-605-5p ; hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-129-5p ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-6878-3p ; hsa-mir-640 ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-378a-5p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-4312 ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-4680-5p ; hsa-mir-4635 ; hsa-mir-3663-5p ; hsa-mir-3653-5p ; hsa-mir-212-5p ; hsa-mir-6747-3p ; hsa-mir-6513-3p ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-6131
Nearest miRNA
hsa-mir-12113/Upstream/4176410; hsa-mir-1305/Downstream/6673990;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/147609, chr4-CpG: 56/Downstream/2772
Upstream sequence
tcgttcttctatttcaaagttgttttggctatcctaggtcctttgtatttctatatgaattttagaatgagtttttcagtttcttaaaaaaaaaaaacct
Downstream sequence
tttttttattCAATGTTTACAATAGCCTTACACCACTAATTAACAGCAAGAACAAGACTCACAGTAAAAATAAAACAGGAAGTGTTTGTTTTAGTCTATA
Target sequence
aattc
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.