The effect of seizures on instantaneous HR (iHR) in 12 neonates is investigated here. HR can be readily extracted from the ECG and can be employed as an additional signal in seizure detection algorithms. The change in instantaneous HR and its correlation with the change in RMS EEG amplitude were examined. Two methods were employed to classify significant iHR changes. Significant correlation (p < 0.05) during seizure was observed in 100% of patients (83.33% of seizures). Overall, significant iHR changes (classified by either method) were found in 83% of patients (50% of seizures). It was found that a markedly higher iHR was observed in patients whose seizures were not classified as having significant iHR changes. © 2008 IEEE.