Characterization of the human proteome and variations resulting from disease or other physiological conditions is a resource of tremendous potential to biological research. Global proteomics using a divide-and-conquer strategy with mass spectrometry is a powerful technology for study of the proteome; it has the potential to lead to minimally-invasive screening mechanisms of proteins in easily accessible body fluids. To effectively use statistical methodologies in this field, it is important to understand the data and the process by which they are produced. I'll focus on methods we have found useful for quantification and some initial work evaluating methods for normalization of proteomic data.
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