Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018154
Fusion event
HBV-DMD 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
813
Host Sequence
Chromosome
chrX
Cytoband
p21.1
Reference genome
Start
End
32675210/32657093 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-31-5p ; hsa-mir-155-5p ; hsa-mir-21-5p ; hsa-mir-16-5p ; hsa-mir-4446-5p ; hsa-mir-186-3p ; hsa-mir-561-3p ; hsa-mir-6499-3p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-297 ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-2052 ; hsa-mir-8068 ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-511-3p ; hsa-mir-9-3p
Nearest miRNA
hsa-mir-23c/Upstream/15515; hsa-let-7f-2/Downstream/5366802;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/1390172, chrX-CpG: 36/Downstream/1069220
Nearest cancer related gene
DMD(TSG, No orient, 0)
Upstream sequence
tctatagtacttaaagctataacacatagttaacattctattcagttattacttcttgtatatttgtaccaatagcatatcagctttttgaagacagaaa
Downstream sequence
ACTTTCTAACTTATTTTATATTTTATTCCTTTATTTTTTCCTGTACTTCACCTGAGACTTTCTGTCTTGGCTATTATAATCCACACAATAGAACCTTTCT
Target sequence
TATCTTTGGGTATACATTT
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