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Determining the Likelihood of Variant Pathogenicity Using Amino Acid-level Signal-to-Noise Analysis of Genetic Variation
Published on: January 16, 2019
Systematic Druggable Genome-Wide Mendelian Randomization Identifies Genetically Supported Therapeutic Targets for
Boteng Yan1,2, Peijiang Pan3, Wenfu Tao4
1Institute of Urology and Nephrology, First Affiliated Hospital of Guangxi Medical University, Nanning 530021, China.
Objective:
Coronary artery disease (CAD) remains a leading cause of mortality worldwide, with substantial unmet therapeutic needs. This study aimed to identify and prioritize genetically supported therapeutic targets for CAD using Mendelian randomization (MR).
Methods:
We implemented a two-sample MR framework to infer the causal effects of blood druggable cis-expression quantitative trait loci (cis-eQTLs) on CAD. To consolidate MR findings, we applied Steiger filtering, Bayesian colocalization, and multiple sensitivity analyses. Mediation and phenomewide MR analyses were employed to investigate potential mechanisms and on-target effects of prioritized druggable genes.
Results:
We identified 66 causal druggable genes associated with CAD in European populations (false discovery rate < 0.001). Among these, ERP29 (odds ratio [OR] = 1.311; 95% confidence interval [CI]: 1.176-1.460), MCL1 (OR = 0.877; 95% CI: 0.840-0.915), TNXB (OR = 1.183; 95% CI: 1.102-1.269), DAGLB, FES, and TRPM4 colocalized with CAD (posterior probability for colocalization > 0.8). The associations for ERP29, MCL1, and TNXB were replicated in an East Asian cohort. Protein-protein interaction network analysis highlighted MAPK3 and TNF as prioritized druggable targets at the protein level. Mediation analysis indicated that body mass index, triglycerides, blood pressure, and atrial fibrillation partially mediate the association between MAPK3 and CAD. Phenome-wide MR analysis further suggested additional beneficial effects of targeting MAPK3 and TNF on diabetes mellitus, obesity, hypertension, unstable angina, myocardial infarction, angina pectoris, coronary atherosclerosis, ischemic heart disease, and disorders of lipoid metabolism.
Discussion:
This druggable genome-wide MR study not only corroborated the targets of FDA-approved CAD medications (e.g., FGFR1, MAPK3, NEU1) but also uncovered several novel genes, such as ERP29, MCL1, TNXB, DAGLB, FES, and TRPM4, implicating mechanisms related to blood pressure, lipid metabolism, and additional beneficial effects on endocrine/cardiometabolic traits and circulatory system disorders. Further exploration is imperative to explore their feasibility and generalizability.
Conclusion:
We identified circulating ERP29, MCL1, TNXB, DAGLB, FES, TRPM4, MAPK3, and TNF as promising, genetically supported druggable targets for CAD treatment. Notably, MAPK3 and TNF demonstrated strong protein-level interactions and close associations with cardiometabolic disorders.
Insights
This study used Mendelian randomization to identify 66 genetically supported therapeutic targets for coronary artery disease (CAD). Key genes like ERP29, MCL1, TNXB, MAPK3, and TNF show promise for novel CAD treatments.
Area of Science:
- Genetics
- Pharmacology
- Cardiovascular Medicine
Background:
- Coronary artery disease (CAD) is a major global cause of death with limited treatment options.
- Identifying genetically validated therapeutic targets is crucial for developing effective CAD therapies.
Purpose of the Study:
- To identify and prioritize genetically supported therapeutic targets for CAD using Mendelian randomization (MR).
- To investigate potential mechanisms and on-target effects of these targets.
Main Methods:
- A two-sample MR framework analyzed causal effects of blood cis-expression quantitative trait loci (cis-eQTLs) on CAD.
- Steiger filtering, Bayesian colocalization, and sensitivity analyses consolidated MR findings.
- Mediation and phenome-wide MR analyses explored mechanisms and gene effects.
Main Results:
- Identified 66 causal druggable genes associated with CAD in European populations.
- ERP29, MCL1, TNXB, DAGLB, FES, and TRPM4 colocalized with CAD and were replicated in an East Asian cohort.
- MAPK3 and TNF were highlighted as prioritized targets, with mediation analysis revealing links to BMI, triglycerides, blood pressure, and atrial fibrillation.
Conclusions:
- The study validated known CAD drug targets and discovered novel genes (ERP29, MCL1, TNXB, DAGLB, FES, TRPM4) implicated in blood pressure and lipid metabolism.
- MAPK3 and TNF show promise as druggable targets, potentially offering benefits for related cardiometabolic disorders.
- Further research is needed to explore the clinical feasibility and generalizability of these identified targets.
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