Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018460
Fusion event
HBV-NCAM2 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
1707
Integrated sequence
GCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATA| |CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA
Host Sequence
Chromosome
chr21
Cytoband
q21.1
Reference genome
Start
End
22514080/21141762 (Hg38)
Location type
Intron1
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-6885-3p ; hsa-mir-1273e ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-3065-5p ; hsa-mir-3529-3p ; hsa-mir-5688 ; hsa-mir-495-3p ; hsa-mir-3658 ; hsa-mir-6505-5p ; hsa-mir-3653-3p ; hsa-mir-4790-3p ; hsa-mir-6507-5p ; hsa-mir-2116-5p ; hsa-mir-22-5p ; hsa-mir-26b-3p ; hsa-mir-3622a-5p ; hsa-mir-4423-3p ; hsa-mir-4652-3p ; hsa-mir-4677-5p ; hsa-mir-4778-5p ; hsa-mir-5582-5p ; hsa-mir-627-3p ; hsa-mir-6806-5p
Nearest miRNA
hsa-let-7c/Upstream/2455598; hsa-mir-155/Downstream/1937522;
Nearest CpG islands
Upstream sequence
tcctttactcatggaaggctcttaaatttagcaaagttcttttgacactgctctggtagtcttttggagagcctccacactatctggcatgacaaggtgt
Downstream sequence
cccaggcctaggctgtatatctactgccctggaccaggaatcaggcatttgtctgaagtgaactgattaactgattacttttagtgggaaattgtatctg
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.