Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019813
Fusion event
HBV-NELL2 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
1804
Integrated sequence
ATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGC| |GCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCAT
Host Sequence
Chromosome
chr12
Cytoband
q12
Reference genome
Start
End
45195689/44801906 (Hg38)
Location type
Intron17
Target gene
miRNAs that regulate target gene
hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-769-5p ; hsa-mir-3185 ; hsa-mir-4307 ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-6507-5p ; hsa-mir-5571-3p ; hsa-mir-4266 ; hsa-mir-331-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-6729-3p ; hsa-mir-4779 ; hsa-mir-4695-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/2478047; hsa-let-7i/Downstream/2385906;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/965545, chr12-CpG: 86/Downstream/74141
Upstream sequence
tgaagaagggattgcccaagggcatgaataccaggagataaagatcattaagtgctattctagtggctgctactatagcctggcctctagccaccaatga
Downstream sequence
gtatgtggtttctggctcctgtgagtgatacctcttgctctgcttcagctctcagttggacttgactgaatcattccttctcttcttgcccccttatgcc
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.