hsa-mir-4753-3p _LIHC.png
PDGFA _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018234
Fusion event
HBV-PDGFA 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
3006
Host Sequence
Chromosome
chr7
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
540077/500440 (Hg38)
End
540077/500440 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
PDGFA
miRNAs that regulate target gene
hsa-let-7d-5p ; hsa-mir-221-3p ; hsa-mir-29b-3p ; hsa-mir-514b-3p ; hsa-mir-514a-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-1273g-5p ; hsa-mir-203a-5p
Nearest miRNA
hsa-mir-10399/Downstream/522493;
Nearest TSS
ENST00000635602/Upstream/4322; ENST00000452622/Downstream/13027;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/5968, chr7-CpG: 22/Downstream/10373
Nearest cancer related gene
PDGFA(OG, No orient, 0)
Upstream sequence
TTTTCAAGGGAAAGCCTTCTGTATCCCTGCACACTTTAAGCAGGTAAATGTTAGATTGCTGCATCAGCTCCTGGACTCTGCATAACTTCTGATGTCCTTC
Downstream sequence
GCTTTAGGTGGGTTTTAACCTTTTTCTTTTCCGTTTTTTACCTGACTCCCTAGGCCTTCCTGTTAACAAAAGGGCAGGGCGGTGAGTGGGCCGAGGGACG
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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