Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018343
Fusion event
HBV-KLHL30 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1822
Host Sequence
Chromosome
chr2
Cytoband
q37.3
Reference genome
End
239062836/238154195 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-6807-5p ; hsa-mir-7847-3p ; hsa-mir-6880-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-6499-3p ; hsa-mir-4695-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-6134 ; hsa-mir-6787-3p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-3156-5p ; hsa-mir-6716-5p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa
Nearest miRNA
hsa-mir-10b/Upstream/643207; hsa-mir-149/Downstream/914622;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/3186, chr2-CpG: 51/Downstream/4741
Upstream sequence
GGCTAGCATAAAAATTAGGTCAGACTAAGAACAGGGTGTGTTACTGTTTTACAATTCTCTCACTGATCAGGCCTAAGAAAAAGTCAATTGCATAGAGCAC
Downstream sequence
ttggagatctgtcccctccgaatctcatgttgagtctgttgagtctgatcgctggtgttggagttgggcctggtgggaggcgtttagatcatgggggcgg
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