Aim High-frequency ultrasonography (HF-USG) allows noninvasive objective evaluation of atopic dermatitis (AD). The level of skin inflammation can be assessed by measurement of subepidermal low echogenic band (SLEB) and skin echogenicity. However, the exact meaning of changes of skin echogenicity is not known. The main aim was the comparison of B-scan images obtained from patients suffering from AD with histological features in biopsies. Materials and methods We performed HF-USG examination (Derma Scan Cortex Technology, version 3, Germany) in 27 patients diagnosed with AD (aged 14–57 years). Before the introduction of proper treatment 5 mm punch biopsies were taken from the area of scanned lesions. Control group consisted of 15 healthy individuals without any signs of atopic and chronic diseases. Results The mean skin echogenicity from lesional antecubital skin in AD was significantly lower than in controls. SLEB was observed in 25 out of 27 patients. There were statistically significant correlations between the hypoechoic band thickness and the following parameters: degree of epidermal hyperplasia, hyperkeratosis, parakeratosis and spongiosis as well as the intensity of inflammatory infiltrates. Skin echogenicity strongly negatively correlated with the intensity of inflammation. Conclusions USG images of AD reflect the phase of disease process.