Dr. Bonaca's research interests include characterization and prediction of cardiovascular risk in patients with atherosclerotic vascular disease as well as investigation of therapies to reduce that risk. Specific disease states of interest include peripheral artery disease, stable coronary artery disease, and aortic disease. He is an active investigator in clinical trials investigating novel therapies including antithrombotic agents for the reduction of cardiovascular risk in patients with symptomatic peripheral artery disease and stable coronary disease. In addition, he is actively involved in the evaluation of established and novel biomarkers as well as clinical characteristics for risk prediction in specific patient populations. In addition to scientific investigation and clinical trial work, Dr. Bonaca leads the TIMI Safety Desk which includes 20 staff members and which is responsible for the monitoring and processing of safety data for multiple large international clinical trials. In addition to his scientific, clinical trial, and safety responsibilities, Dr. Bonaca is an active member of the clinical staff at Brigham and Women's hospital and attends on the inpatient cardiology and cardiology/vascular medicine consult services. He maintains a regular clinic and is the Medical Director of the the Brigham and Women's Aortic Center.

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