Many more robust, accurate measurement tools exist for characterizing the sequence and concentration of nucleic acids than exist for other biological analytes. A major contributing factor to this disparity is the relative stability of the analytes themselves. We seek to develop measurement technologies that quantitatively translate the concentrations of proteins and other analytes to the concentrations of synthetic nucleic acids (e.g., quantitative capture of protein targets using aptamers). Work is in progress on the development of: standards to characterize sequencing platforms for taking census of synthetic populations nucleic acids, techniques for using sequencing platforms to direct evolution of new aptamers, and microfluidic platforms for purification and concentration of free nucleic acids from complex samples such as cell lysate. A combination of these developments with the new, commercially available highly multiplexed sequence platforms will enable massively multiplexed measurements of protein concentrations across a wide dynamic range from single cell samples.