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Low glycinin soybeans were enriched in β‐conglycinins, with similar amino acid, isoflavone, and fatty acid profiles as conventional soybean. β‐conglycinins and other soybean components are potential protective agents against body fat accumulation and inflammation. The objective was to compare low glycinin soymilk (LGS) with conventional soymilk (S) and cow's milk (M) for effects on body fat accumulation, serum lipids, antioxidant capacity and biomarkers of oxidative stress and inflammation. In a randomized, double‐blind, placebo controlled, IRB approved study, overweight men (BMI > 25) were divided into three groups and fed daily for 3 months 500 ml of LGS, S or M. No changes were observed in their calorie intake and physical activity (p > 0.05). LGS consumption caused less total body fat accumulation compared to S and M. Oxidized LDL was dramatically decreased after LGS consumption (−75%) in comparison to M (p = 0.03). The rate of increase of serum antioxidant capacity was faster after consumption of LGS (8%, 16%, and 21%) compared to S (−3%, 12%, and 18%) at 1, 2 and 3 months, respectively, but no increase was observed for M. Interleukin‐6 decreased after 3 months for LGS consumption but not M (p < 0.03). LGS ameliorated body fat accumulation and improved antioxidant status compared to S in overweight men. LGS consumption may be useful to prevent body fat accumulation and reverse oxidative stress.Monsanto Co., ADM and ISAGrant Funding Source: Monsanto, ADM, Illinois Soybean Association

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