Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017961
Fusion event
HBV-KCNH1 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1826
Host Sequence
Chromosome
chr1
Cytoband
q32.2
Reference genome
End
211059195/210885853 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-7704 ; hsa-mir-615-5p ; hsa-mir-2467-3p ; hsa-mir-4257 ; hsa-mir-6890-5p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-6753-5p ; hsa-mir-1911-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-505-3p ; hsa-mir-4290 ; hsa-mir-1233-3p ; hsa-mir-7113-3p ; hsa-mir-4673 ; hsa-mir-339-5p ; hsa-mir-4645-5p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-4687-5p ; hsa-mir-508-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1180658; hsa-mir-1182/Downstream/1191760;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/120248, chr1-CpG: 92/Downstream/247472
Upstream sequence
GCCTAGAAGGAAGAAGCTACTTAGCTAATGAAAGCTGAGACACTTTATTAAAAGCAGGATCTTAAGAGCATTGTTTTTCCTTAAAAACTTTATACTCTCA
Downstream sequence
tctgggcagaccatgtctgaaagagaggcagcagccccagtcagggtcttatagataaaactcccatatccctgggacagagcacctgagggaaatggtg
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13