The yeast proteome database (YPD): a model for the organization and presentation of genome-wide functional data

The Yeast Proteome Database (YPD) is a model for the organization and prese ntation of comprehensive protein information. Based on the detailed curatio n of the scientific literature for the yeast Saccharomyces cerevisiae, YPD contains more than 50 000 annotations lines derived from the review of 8500 research publications, The information concerning each of the similar to 6 100 yeast proteins is structured around a convenient one-page format, the Y east Protein Report, with additional information provided as pop-up windows . Protein classification schema have been revised this year, defining each protein's cellular role, function and pathway, and adding a Functional Abst ract to the Yeast Protein Report. These changes provide the user with a suc cinct summary of the protein's function and its place in the biology of the cell, and they enhance the power of YPD Search functions, Precalculated se quence alignments have been added, to provide a crossover point for compara tive genomics, The first transcript profiling data has been integrated into the YPD Protein Reports, providing the framework for the presentation of g enome-wide functional data. The Yeast Proteome Database can be accessed on the Web at http://www.proteome.com/YPDhome.html.