Soy extracts encapsulated with oligosaccharides and processes for making the encapsulated soy extracts. The processes generally comprise combining a soy extract solution and an oligosaccharide solution to encapsulate the soy extract with the oligosaccharide, precipitation of the encapsulated soy extract solution to form sediment, centrifugation, ion exchange to remove ionic components and drying. Soy extracts encapsulated in the process include isoflavone derivatives, such as daidzin, glycitin, genistin, daidzein, glycitein and genistein, which may be encapsulated with αr-cyclodextrin, &bgr;-cyclodextrin, γ-cyclodextrin or combinations of these oligosaccharides.