Kinase activity profiling with PamChip® peptide microarrays can be used to study signal transduction in lysates of cell lines and clinical samples. Putative “upstream” kinases, that phosphorylate peptides on the microarray, may be identified using PTM databases such as HPRD, PhosphoSitePlus or data bases with in-silico predictions of which PhosphoNET contains predictions for a relatively large number of kinases.
Rik de Wijn, PamGene's Bioinformatics expert, presented a poster at the BioSB Conference (May 20-21, 2015, in Lunteren, The Netherlands), describing how upstream kinases were identified that were responsible for multiple parallel changes in petpide phosphorylation, using PamGene's kinase activity profiling assays and PamGene's BioNavigator software.
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In this Serine/Threonine kinase (STK example): Cell cultures with and without induction of MAPK/ER were compared. Mapping the results to a kinase phylogenetic tree highlights the clustering of putatively activated kinases in the MAPK/ERK family branch.
"Illustration reproduced courtesy of Cell Signaling Technology, Inc. (www.cellsignal.com)”, using the Kinome render tool (no longer available).
PamGene currently uses the KinHub-KinMAP Tool for a similar mapping on the Kinome tree (http://kinhub.org/kinmap/).