Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019031
Fusion event
HBV-SERPING1 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
Host Sequence
Chromosome
chr11
Cytoband
q12.1
Reference genome
Start
End
57365721/57598248 (Hg38)
Location type
Exon2
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1273g-3p ; hsa-mir-498 ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-6720-5p ; hsa-mir-7703 ; hsa-mir-6512-3p ; hsa-mir-661 ; hsa-mir-6776-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6742-3p ; hsa-mir-6849-3p ; hsa-mir-508-5p ; hsa-mir-629-3p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-873-3p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-6839-3p ; hsa-mir-4507 ; hsa-mir-3940-5p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-4284 ; hsa-mir-6774-5p ; hsa-mir-635 ; hsa-mir-4772-3p ; hsa-mir-1304-3p ; hsa-mir-6890-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p
Nearest miRNA
hsa-mir-129-2/Upstream/854267; hsa-let-7a-2/Downstream/42950;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/30235, chr11-CpG: 19/Downstream/48679
Upstream sequence
ggaagtactgcaataccaggtcgatgcgtggagtggacggagcaagctcctattccatctcctatttccaaaaatccatttaatatattgtcctcggata
Downstream sequence
AGGCAGAAAAGCAGCTAAGAGGTATTATAGGAAGCAGTGAAAGTCATGAACAACCGTGTAAAATTGGGAATAAGTAGGCTCAGGTGAAGCACAGTGACAA
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.