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The present study evaluates the application of Nanostream Inc.'s Veloce micro-parallel liquid chromatography (μPLC) system, a high-throughput microfluidic liquid chromatography (LC) system, for the analysis of peptides and proteins. Using the Veloce system, as well as traditional high-performance liquid chromatography (HPLC) systems, we performed separations and analyses of (1) a mixture of peptide standards, (2) crude and semipure synthetic peptides, and (3) peptide components of a protein digested with trypsin. In all these studies, the Veloce system was evaluated by comparison to a traditional HPLC system for the number of peaks, their resolution, retention time, shape, and width. When similar columns were used, the performance of the Veloce system was comparable to that of traditional HPLC systems. In general, the Veloce system offers several advantages over traditional HPLC systems, such as the ability to analyze samples in a high-throughput manner with significantly lower consumption of samples and solvents.