Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018636
Fusion event
HBV-CIT 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
1542
Integrated sequence
CTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACG| |CGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTG
Host Sequence
Chromosome
chr12
Cytoband
q24.23
Reference genome
End
120187757/119749952 (Hg38)
Location type
Intron25
Target gene
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-93-3p ; hsa-mir-92b-3p ; hsa-mir-29b-3p ; hsa-mir-92a-3p ; hsa-mir-6835-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-4480 ; hsa-mir-203a-3p ; hsa-mir-5009-3p ; hsa-mir-4499 ; hsa-mir-1252-3p ; hsa-mir-3646 ; hsa-mir-607 ; hsa-mir-6715b-3p ; hsa-mir-6854-3p ; hsa-mir-154-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-486-5p
Nearest miRNA
hsa-let-7i/Upstream/36228; hsa-mir-3612/Downstream/405482;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/59466, chr12-CpG: 26/Downstream/54165
Upstream sequence
GGGCCCGTGACGGCTTTTTCATGCCCTAGTTGGGGTCTCCAGGGCCCGCGCGGGCATTCTGGAAGGTTCTGCGTCCTTTAGGGTTGGAGGCCTGGGCCCG
Downstream sequence
CCAAAGTTAAAATGGGGTTGGTTTAACTTTAATATGATAATGTGTGCAAATATTAGAAACTAAATTTCTTATTATAGTTCTAAGTGTACCTTTAACGGTT
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.