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Anal Chem. 2004 Jul 1;76(13):3856-60.

A tool to visualize and evaluate data obtained by liquid chromatography-electrospray ionization-mass spectrometry.

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The Institute for Systems Biology, 1441 North 34th Street, Seattle, WA 98103-8904, USA.


We present a software tool for visualizing data obtained from analyzing complex peptide mixtures by liquid chromatography (LC) electrospray ionization (ESI) mass spectrometry (MS). The data are represented as a two-dimensional density plot. For experiments employing collision-induced dissociation (CID), links are embedded in the image to the CID spectra and the corresponding peptide sequences that are represented by the respective feature. The image provides an intuitive method to evaluate sample quality and the performance of an LC-ESI-MS system and can be used to optimize experimental conditions. Local patterns of the image can also be used to identify chemical contaminants and specific peptide features. Therefore, this software tool may have broad application in MS-based proteomics.

[Indexed for MEDLINE]

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