ArticlePloS one2011
Predicting protein kinase specificity: Predikin update and performance in the DREAM4 challenge.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Computational Phosphorylation Network Reconstruction: An Update on Methods and Resources.Methods in molecular biology (Clifton, N.J.) · 2021Article
- DeepKinZero: zero-shot learning for predicting kinase-phosphosite associations involving understudied kinases.Bioinformatics (Oxford, England) · 2020Article
- Evolution of protein kinase substrate recognition at the active site.PLoS biology · 2019Article
- Kinome-wide identification of phosphorylation networks in eukaryotic proteomes.Bioinformatics (Oxford, England) · 2019Article
- Untargeted metabolomics unravels functionalities of phosphorylation sites in Saccharomyces cerevisiae.BMC systems biology · 2016Article
- Analysis of the N-terminal region of human MLKL, as well as two distinct MLKL isoforms, reveals new insights into necroptotic cell death.Bioscience reports · 2015Article
- Identifying three-dimensional structures of autophosphorylation complexes in crystals of protein kinases.Science signaling · 2015Article
- Article
- Dynamic Alterations to α-Actinin Accompanying Sarcomere Disassembly and Reassembly during Cardiomyocyte Mitosis.PloS one · 2015Article
- Dynamics of re-constitution of the human nuclear proteome after cell division is regulated by NLS-adjacent phosphorylation.Cell cycle (Georgetown, Tex.) · 2014Article
- Exploiting holistic approaches to model specificity in protein phosphorylation.Frontiers in genetics · 2014Review
- PREDIVAC: CD4+ T-cell epitope prediction for vaccine design that covers 95% of HLA class II DR protein diversity.BMC bioinformatics · 2013Article
- The maize OST1 kinase homolog phosphorylates and regulates the maize SNAC1-type transcription factor.PloS one · 2013Article
- Regulation and function of protein kinases and phosphatases.Enzyme research · 2011Article
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Authors and funding
2 authors.
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Abstract
Predikin is a system for making predictions about protein kinase specificity. It was declared the "best performer" in the protein kinase section of the Peptide Recognition Domain specificity prediction category of the recent DREAM4 challenge (an independent test using unpublished data). In this article we discuss some recent improvements to the Predikin web server--including a more streamlined approach to substrate-to-kinase predictions and whole-proteome predictions--and give an analysis of Predikin's performance in the DREAM4 challenge. We also evaluate these improvements using a data set of yeast kinases that have been experimentally characterised, and we discuss the usefulness of Frobenius distance in assessing the predictive power of position weight matrices.
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