This study measured integrated backscatter (IB) values in the subendocardium and subepicardium of patients with hypertrophy using the newly developed Backscattered Energy Temporal Analysis (BETA) system, and evaluated the differences of acoustic properties according to etiology. Twenty-one patients with hypertrophic cardiomyopathy (HCM), 16 with pressure-overloaded hypertrophy (POH), and 21 controls were studied. M-mode formatted IB images were obtained using BETA and the region of interest (ROI), automatically divided into epicardial and endocardial halves of the myocardium, was placed in the ventricular septum and posterior wall. Values for the cyclic variation of IB (CVIB) in the entire ROI and in each half of the ROI were obtained. CVIB significantly decreased in the ventricular septum in HCM and POH compared with normal subjects, but there were no significant differences between HCM and POH. In the posterior wall, the CVIB was less in the subendocardium than in the epicardium in POH, and was also less than in normal subjects (7.0+/-1.7 dB vs 8.6+/-1.9 dB and 8.8+/-2.1 dB, p<0.05, respectively). Separate ultrasonic tissue characterization of the subendocardium and subepicardium provides further etiological information of various heart diseases.