hsa-mir-3143 _LIHC.png
SHC4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018066
Fusion event
HBV-SHC4 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
448
Host Sequence
Chromosome
chr15
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
49190536/48898339 (Hg38)
End
49190536/48898339 (Hg38)
Location type
Intronic
Target gene
SHC4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-552-5p ; hsa-mir-6516-5p ; hsa-mir-302c-5p ; hsa-mir-455-3p ; hsa-mir-6499-3p ; hsa-mir-3143 ; hsa-mir-543
Nearest miRNA
hsa-mir-10393/Upstream/3465210; hsa-mir-11181/Downstream/270731;
Nearest TSS
ENST00000557528/Upstream/20203; ENST00000559620/Downstream/39897;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/19826, chr15-CpG: 47/Downstream/64448
Upstream sequence
caaatttatgttgggccacgttcaaagccatcctggatcccatgtagtggcccgtcagccacaggttggacaagtttgatatagatcaacagtaacaaca
Downstream sequence
ATTATCAAGGGGCATCACCCGTGTACTCTAGGAGGGTGAACTCAGCCTCATAAAATACATCCTTTCACTTTAGAAACAGGCACCTCGGGTCCCAGGATGG
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
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