Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018991
Fusion event
HBV-PACS1 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
q13.2
Reference genome
Start
End
65993217/66225746 (Hg38)
Location type
Intron10
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-324-5p ; hsa-mir-320a ; hsa-mir-218-5p ; hsa-mir-6869-5p ; hsa-mir-526b-5p ; hsa-mir-431-5p ; hsa-mir-4711-5p ; hsa-mir-935 ; hsa-mir-3662 ; hsa-mir-6513-5p ; hsa-mir-599 ; hsa-mir-5089-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-3145-3p ; hsa-mir-610 ; hsa-mir-3614-5p ; hsa-mir-4461 ; hsa-mir-6079 ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-9-5p ; hsa-mir-8485 ; hsa-mir-1200 ; hsa-mir-4284 ; hsa-mir-4772-3p ; hsa-mir-4682 ; hsa-mir-3653-5p ; hsa-mir-1304-3p ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-660-3p ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p ; hsa-mir-2861 ; hsa-mir-3134 ; hsa-mir-449b-3p ; hsa-mir-4534 ; hsa-mir-602 ; hsa-mir-6081 ; hsa-mir-6749-5p ; hsa-mir-8082
Nearest miRNA
hsa-mir-10392/Upstream/576493; hsa-let-7a-2/Downstream/708688;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/154568, chr11-CpG: 120/Downstream/31693
Upstream sequence
TCCTGTCAAAAATGGGCTATGTTAACTTGAAACTTTAGGATATGCTCCTGTTTTTATTGGTGAAGCTTTCCTAGCAATGTGAAAAAGGATACCATTACAC
Downstream sequence
tggagaagagatatctcaaagggaatgtgagagctctcttcacatttctgaagaggattaggcatatgggattagacttctacgtgatttgaagagacag
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.