Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018144
Fusion event
HBV-SH3BGRL 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
1658
Host Sequence
Chromosome
chrX
Cytoband
q21.1
Reference genome
Start
End
80464443/81208944 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-128-3p ; hsa-mir-181a-5p ; hsa-mir-210-3p ; hsa-mir-559 ; hsa-mir-548b-5p ; hsa-mir-548a-5p ; hsa-mir-548c-5p ; hsa-mir-548d-5p ; hsa-mir-548j-5p ; hsa-mir-548h-5p ; hsa-mir-548i ; hsa-mir-548w ; hsa-mir-548y ; hsa-mir-548o-5p ; hsa-mir-548ab ; hsa-mir-548ad-5p ; hsa-mir-548ae-5p ; hsa-mir-548ak ; hsa-mir-548am-5p ; hsa-mir-4703-3p ; hsa-mir-548ap-5p ; hsa-mir-548aq-5p ; hsa-mir-548ar-5p ; hsa-mir-548as-5p ; hsa-mir-548au-5p ; hsa-mir-548ay-5p ; hsa-mir-7852-3p ; hsa-mir-548bb-5p ; hsa-mir-487b-5p ; hsa-mir-487a-5p ; hsa-mir-1295a ; hsa-mir-5704 ; hsa-mir-4716-5p ; hsa-mir-4781-3p ; hsa-mir-15a-3p ; hsa-mir-4717-5p ; hsa-mir-6885-3p ; hsa-mir-3140-3p ; hsa-mir-548l ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p
Nearest miRNA
hsa-let-7f-2/Upstream/2307693; hsa-mir-105-1/Downstream/3016808;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/204948, chrX-CpG: 63/Downstream/2299619
Upstream sequence
cttttctggttccttctcatttgggtacactatttcagtggaaaggtctgaaactcaagtcttgccattcagattctcttgtcccacagggtaatccctt
Downstream sequence
GTGTTCAATGATGCTAGGTTTTTTGTTGTTGTATTGCCCTTTCGTTAGCATAACTAAGtttttttttttttttttttttttaagacggagtctcactctg
Target sequence
AA
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