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Ellis JJ and Kobe B  (2011) Predicting Protein Kinase Specificity: Predikin Update and Performance in the DREAM4 Challenge. PLoS One 6(7):e21169

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Peptide Recognition Domain specificity prediction category of the recent DREAM4 challenge (an independent test using unpublished data).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.

Status: Published Type: Journal Article PubMed ID: 21829434

Topics addressed in this paper

Number of different genes curated to this paper: 46

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Topics Topics not linked to Genes Genes linked to topics (#1 - 10 )
ARK1 ATG1 CDC15 CDC28 CDC5 CDC7 CKA1 CLA4 CMK1 CMK2
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Omics yg ball
Other Features blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Other large-scale proteomic analysis yg ball

Topics Genes linked to topics (#11 - 20 )
FMP48 FPK1 FRK1 GCN2 GIN4 HRR25 HSL1 IPL1 KCC4 KIN1
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Other Features blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball

Topics Genes linked to topics (#21 - 30 )
KIN3 KIN4 KSP1 MEK1 MPS1 NNK1 PKH2 PRK1 PRR1 PSK2
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Other Features blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
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  • To find other papers on a gene and topic, click on the colored ball in the appropriate box.
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  • To go to the Locus page for a gene, click on the gene name.

Topics Genes linked to topics (#31 - 40 )
PTK2 RAD53 RCK2 RIM15 SCH9 SKM1 STE20 TOS3 TPK1 TPK2
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Other Features blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball

Topics Genes linked to topics (#41 - 46 )
TPK3 YCK1 YCK2 YCK3 YPK1 YPK2
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball
Other Features blue ball blue ball blue ball blue ball blue ball blue ball

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