Ionic liquid-based aqueous two-phase extraction within a microchannel system

► Ionic liquid-based aqueous two-phase protein extraction: theory and experiments. ► The first report on an extraction within a microfluidic device using selected IL-ATPS. ► Experimental verification of a 3D model describing microextractor behavior. ► IL-ATPS was more efficient extraction media as compared to PEG/phosphate ATPS. ► Further process optimization using 3D model is feasible.