Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006994
Fusion event
HBV-NEDD4L integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
Bj
Reference genome
Not given
Start
1187
End
1486
Orient
-
Host Sequence
Chromosome
chr18
Cytoband
q21.31
Reference genome
Start
End
55739297/58072065 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-1296-5p ; hsa-mir-423-5p ; hsa-mir-7855-5p ; hsa-mir-6807-5p ; hsa-mir-7843-3p ; hsa-mir-4710 ; hsa-mir-4792 ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-2467-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-1827 ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-5186 ; hsa-mir-4786-3p ; hsa-mir-665 ; hsa-mir-4459 ; hsa-mir-4257 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-4695-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6504-3p ; hsa-mir-656-3p ; hsa-mir-5011-5p ; hsa-mir-93-3p ; hsa-mir-30a-5p ; hsa-mir-376c-3p
Nearest miRNA
hsa-mir-1-2/Upstream/2592767; hsa-mir-122/Downstream/379009;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/26765, chr18-CpG: 19/Downstream/123356
Nearest cancer related gene
NEDD4L(TSG, No orient, 0)
Upstream sequence
gatttgggtggggacacagagccaaaccatatcaagttgtatgccaacaaattaggtaacctaaatggaatttatacaaattcatgtagatgcaaatggc
Downstream sequence
cataactgactaaagaatttgaaaatctgaataggccaataacaggtaaagagattgaaatagcaatcaggaaaccttccaccaaaaaatactgggtcac
Reference
Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.