A system for separating whey proteins from whey, said system comprising: a filtration unit comprising a bottom plate at a first extremity, a top plate at a second extremity opposite to the first extremity, a permeate spacer placed proximate to and in spaced apart relation with respect to the bottom plate, at least one porous filter placed proximate to and in spaced apart relation with respect to the permeate spacer and a gasket provided between the porous filter and the top plate; the filtration unit defining an input port, a permeate port and a retentate port; the porous filter comprising cotton cloth having an ion exchange element deposited thereupon; a feed storage unit connected to the input port of the filtration unit via a first pump; an eluent storage unit connected to the input port of the filtration unit via a second pump; a first set of tubing comprising an input end, a first output end, a second end, a first valve for controlling an amount of fluid flowing out of the first output end and a second valve for controlling an amount of fluid flowing out of the second output end, the input end being connected to the permeate port, the first output end being connected to the feed storage unit and the second output end being connected to the eluent storage unit; and a second set of tubing comprising a input end, a first output end, a second end, a first valve for controlling an amount of fluid flowing out of the first output end and a second valve for controlling an amount of fluid flowing out of the second output end, the input end being connected to the retentate port, the first output end being connected to the feed storage unit and the second output end being connected to the eluent storage unit. a filtration unit comprising a bottom plate at a first extremity, a top plate at a second extremity opposite to the first extremity, a permeate spacer placed proximate to and in spaced apart relation with respect to the bottom plate, at least one porous filter placed proximate to and in spaced apart relation with respect to the permeate spacer and a gasket provided between the porous filter and the top plate; the filtration unit defining an input port, a permeate port and a retentate port; the porous filter comprising cotton cloth having an ion exchange element deposited thereupon; a feed storage unit connected to the input port of the filtration unit via a first pump; an eluent storage unit connected to the input port of the filtration unit via a second pump; a first set of tubing comprising an input end, a first output end, a second end, a first valve for controlling an amount of fluid flowing out of the first output end and a second valve for controlling an amount of fluid flowing out of the second output end, the input end being connected to the permeate port, the first output end being connected to the feed storage unit and the second output end being connected to the eluent storage unit; and a second set of tubing comprising a input end, a first output end, a second end, a first valve for controlling an amount of fluid flowing out of the first output end and a second valve for controlling an amount of fluid flowing out of the second output end, the input end being connected to the retentate port, the first output end being connected to the feed storage unit and the second output end being connected to the eluent storage unit.