NTM _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007107
Fusion event
HBV-NTM integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26553052
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
2266
End
2473
Orient
+
Host Sequence
Chromosome
chr11
Cytoband
q25
Reference genome
GRCh37/hg19
Start
131585709/131715815 (Hg38)
End
131585709/131715815 (Hg38)
Orient
+
Location type
Intron
Target gene
NTM
miRNAs that regulate target gene
hsa-mir-182-5p ; hsa-mir-340-5p ; hsa-mir-501-5p ; hsa-mir-500b-5p ; hsa-mir-362-5p
Nearest miRNA
hsa-let-7a-2/Upstream/1049012; hsa-mir-4697/Downstream/2182689;
Nearest TSS
ENST00000527297/Upstream/52232; ENST00000470371/Downstream/181293;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/24096, chr11-CpG: 121/Downstream/194643
Upstream sequence
tgcattttctagaatttcatatatttggaatcacacaatatgtactcacttttgtctggcttccttcactcagtataattatttagagattgatccatgt
Downstream sequence
tgttgcatgtattagtagttcatttttattgctgaaaagtattccacagtatgcatatatcatgtgtttatgcattcaatgattggtgtacatttaggtt
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.
Curate