Increasing concern has been recently raised on the possible effects of soy-derived phyto-oestrogens on the development of cognitive functions in infants. However, limited studies have been conducted to date, and no data have been made available for determining whether infant soy formula can affect normal development of the human brain. We compared electroencephalographic (EEG) spectral power derived from high-density recordings of infants fed milk-based or soy formula (46 fed milk-based formula and 39 fed soy formula) at 3 and 6 months of age. The spectral parameters included absolute power, relative power and spectral edge frequency (SEF) at 85%, 90% and 95% levels. The frequency domain contained four bands (0.1-3, 3-6, 6-9 and 9-12 Hz). EEG signals were collected from eight brain areas in each hemisphere. The results showed that the highest spectral power was mainly distributed in the low-frequency bands and was predominant in the frontal and anterior temporal areas. None of the spectral variables significantly differed between the soy- and milk-fed infants (anova, all P > 0.2). However, significant effects were indicated on the SEFs for factors of sex, age and brain area (all P < 0.01). Hemispheric differences in the absolute and relative power were also indicated. Our results suggest that the EEG power spectral development of soy-fed infants does not differ from that of infants fed milk-based formula. In addition, EEG spectral development appears more advanced in female than in male infants at 6 months.