title: Target specificity analysis of the Abl kinase using peptide microarray data.
abstract: Protein kinases play an important role in cellular signalling. The reliable prediction of their substrates is of high importance for the deciphering of signalling pathways. A recently developed peptide microarray technology for the charcterisation of protein kinases delivers data on the individual phosphorylation status of each single member of a large peptide library. This data can be used to approximate the substrate specificity of the investigated kinase. We present an approach to process the collected information using a combination of a weight matrix approach and a nearest neighbor approach. Experiments with the protein-tyrosine kinase Abl are conducted to validate the results. Randomly selected peptides (1433) are used to estimate the substrate preferences of the kinase. The obtained prediction results are compared with standard methods. The new approach is tested further on bona fide Abl phosphorylation sites.
authors.affiliation: BioInfoBank Institute, Limanowskiego 24A/16, 60-744, Poznan, Poland. leszek@bioinfo.pl
authors.forename: Leszek
authors.initials: L
authors.lastname: Rychlewski
authors.forename: Maik
authors.initials: M
authors.lastname: Kschischo
authors.forename: Liying
authors.initials: L
authors.lastname: Dong
authors.forename: Mike
authors.initials: M
authors.lastname: Schutkowski
authors.forename: Ulf
authors.initials: U
authors.lastname: Reimer
mesh_terms: D001665:Binding Sites; D006801:Humans; D010766:Phosphorylation; D040081:Protein Array Analysis; D016315:Proto-Oncogene Proteins c-abl / Q000378:metabolism*; D013379:Substrate Specificity
chemical_list: D016315:Proto-Oncogene Proteins c-abl