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A quantitative literature-curated gold standard for kinase-substrate pairs

Sara Sharifpoor12†, Alex N Nguyen Ba34†, Ji-Young Young12, Dewald van Dyk12, Helena Friesen1, Alison C Douglas12, Christoph F Kurat12, Yolanda T Chong12, Karen Founk12, Alan M Moses34* and Brenda J Andrews12*

Author Affiliations

1 Department of Molecular Genetics, The Donnelly Centre for Cellular and Biomolecular Research, University of Toronto,160 College Street, Toronto, M3S 3E1, Canada

2 Banting and Best Department of Medical Research, University of Toronto, 112 College Street, Toronto, M5G 1L6, Canada

3 Department of Cell and Systems Biology, University of Toronto, 25 Harbord Street, Toronto, M5S 3G5, Canada

4 Centre for the Analysis of Genome Evolution and Function, University of Toronto, 25 Willcocks Street, Toronto, M5S 3B2, Canada

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Genome Biology 2011, 12:R39 doi:10.1186/gb-2011-12-4-r39

Published: 14 April 2011

Abstract

We describe the Yeast Kinase Interaction Database (KID, http://www.moseslab.csb.utoronto.ca/KID/ webcite), which contains high- and low-throughput data relevant to phosphorylation events. KID includes 6,225 low-throughput and 21,990 high-throughput interactions, from greater than 35,000 experiments. By quantitatively integrating these data, we identified 517 high-confidence kinase-substrate pairs that we consider a gold standard. We show that this gold standard can be used to assess published high-throughput datasets, suggesting that it will enable similar rigorous assessments in the future.