Syndromic surveillance (SS) data has predominantly been used for surveillance of infectious disease and for broad symptom types that could be associated with bioterrorism. This work evaluates several non-infectious disease related syndromes, such as asthma, oral health and hypothermia, by comparing daily syndrome counts and annual hospital syndrome counts based on emergency department (ED) SS data vs. New York Statewide Planning and Research Cooperative System (SPARCS) data. SPARCS data are based on clinical diagnoses providing a means for evaluating how well non-infectious disease trends are captured by ED SS chief complaint data.