Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018449
Fusion event
HBV-CLMP 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
1835
Integrated sequence
GAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTG| |CCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCT
Host Sequence
Chromosome
chr11
Cytoband
q24.1
Reference genome
End
122988028/123117320 (Hg38)
Location type
Intron6
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-3685 ; hsa-mir-20a-3p ; hsa-mir-1283 ; hsa-mir-155-3p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-4252 ; hsa-mir-4520-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-3193 ; hsa-mir-6849-3p ; hsa-mir-1273g-3p ; hsa-mir-596 ; hsa-mir-508-5p ; hsa-mir-122-3p ; hsa-mir-382-3p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-4635 ; hsa-mir-324-5p ; hsa-mir-877-3p
Nearest miRNA
hsa-let-7a-2/Upstream/965012; hsa-mir-3167/Downstream/264120;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/54225, chr11-CpG: 115/Downstream/77398
Upstream sequence
TTTTCCAAGAATATGTAAAATGAGACTTGGAGTTTAATTAAAATCAGAACAGGGATACATTAAACAAACAAACAAAAAATACTTTTCTGATTATCAATTC
Downstream sequence
GGATAGAGCCTCCTCAAATCCAAATGCTACCAGCTCCAGCTCCCAGGATCCAGAGAGTTTGCAAGACAGAGGCGAAGGGAAGGTCGCAACAACAGTTATC
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.