Integrate Molecular Phenome and Polygenic Interaction to Detect the Genetic Risk of Ischemic Stroke

Frontiers in Cell and Developmental Biology
Xiaoying LiLitao Sun

Abstract

Ischemic stroke (IS) is one of the leading causes of death, and the genetic risk of which are continuously calculated and detected by association study of single nucleotide polymorphism (SNP) and the phenotype relations. However, the systematic assessment of IS risk still needs the accumulation of molecular phenotype and function from the level of omics. In this study, we integrated IS phenome, polygenic interaction gene expression and molecular function to screen the risk gene and molecular function. Then, we performed a case-control study including 507 cases and 503 controls to verify the genetic associated relationship among the candidate functional genes and the IS phenotype in a northern Chinese Han population. Mediation analysis revealed that the blood pressure, high density lipoprotein (HDL) and glucose mediated the potential effect of SOCS1, CD137, ALOX5AP, RNLS, and KALRN in IS, both for the functional analysis and genetic association. And the SNP-SNP interactions analysis by multifactor dimensionality reduction (MDR) approach also presented a combination effect of IS risk. The further interaction network and gene ontology (GO) enrichment analysis suggested that CD137 and KALRN functioning in inflammatory could play an...Continue Reading

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Methods Mentioned

BETA
genotyping
PCR

Software Mentioned

DotPlot
Ensembl
NetworkAnalyzer
R
SHEsis
Cytoscape
R pachage clusterProfiler
GOTERM
miRanda
pachage clusterProfiler

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