A microfabricated fluidic device that combines micellar electrokinetic chro
matography and high-speed open-channel electrophoresis on a single structur
e for the rapid automated two-dimensional analysis of peptides has been dev
ised and demonstrated. The microchip operates by rapidly sampling and analy
zing effluent in the second dimension from the first dimension. Second-dime
nsion analyses are performed and completed every few seconds, with total an
alysis times of less than 10 min for tryptic peptides. The peak capacity of
the two-dimensional separations has been estimated to be in the 500-1000 r
ange. The orthogonality of the separation techniques, an important factor f
or maximizing peak capacity or resolution elements, was verified by examini
ng each technique independently for peptide separations. The two-dimensiona
l separation strategy was found to greedy increase the resolving power over
that obtained for either dimension alone.