hsa-mir-4742-3p _LIHC.png
NIPAL2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018845
Fusion event
HBV-NIPAL2 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1797
Integrated sequence
TTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATT| |GGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTT
Host Sequence
Chromosome
chr8
Cytoband
q22.2
Reference genome
GRCh37.55
Start
99298361/98286133 (Hg38)
End
99298366/98286138 (Hg38)
Location type
Intron11
Fragile sites / regions
FRA8B
Target gene
NIPAL2
miRNAs that regulate target gene
hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-335-3p ; hsa-mir-3686 ; hsa-mir-539-3p ; hsa-mir-485-3p ; hsa-mir-152-5p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-4742-3p
Nearest miRNA
hsa-mir-12123/Upstream/3213137; hsa-mir-10400/Downstream/107507;
Nearest TSS
ENST00000518652/Upstream/32065; ENST00000521839/Downstream/7972;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/168506, chr8-CpG: 98/Downstream/7537
Upstream sequence
CAATCCCTTCTCTCTAGTTCTGAACAAACAAAAGGGATTGCATAAATTGCAATGGAAACAAATTATACCCCTTTACTGACAAACTCCCACTGGGATTCCT
Downstream sequence
ccctcatgttatgacacagcaagaaggcccttaccagatgcagcccctggaccttggacttctcagcctccagaaccatgagccaaataaacttctattg
Target sequence
gcctt
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.
Curate