PeSA: A software tool for peptide specificity analysis |
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| Institution: | 1. Department of Biochemistry, University of Wisconsin, Madison, WI 53706, United States;2. Human Health Therapeutics, National Research Council Canada, Ottawa, Ontario K1A OR6, Canada;1. Department of Biology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada;2. Department of Arctic and Marine Biology, University of Tromsø, N-9037 Tromsø, Norway;3. USGS-BRD, Western Fisheries Research Center, Columbia River Research Laboratory, Cook, WA 98605, USA;1. Department of Clinical Microbiology and Immunology, National Institute of Nutrition, Jamai-Osmania PO, Tarnaka, Hyderabad, India;2. Department of Pathology, National Institute of Nutrition, Jamai-Osmania PO, Tarnaka, Hyderabad, India;1. National Isotope Centre, GNS Science, 30 Gracefield Road, Lower Hutt, New Zealand;2. The MacDiarmid Institute for Advanced Materials and Nanotechnology, School of Chemical and Physical Sciences, PO Box 600, Wellington 6140, New Zealand;1. Department of Medical Chemistry, Faculty of Medicine, University of Debrecen, Egyetem tér 1, Debrecen H-4032, Hungary;2. Stem Cells and Eye Research Laboratory, Department of Ophthalmology, Faculty of Medicine, University of Szeged, Korányi fasor 10-11, Szeged H-6720, Hungary |
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| Abstract: | The discovery and characterization of molecular interactions is crucial towards a better understanding of complex biological processes. Particularly protein-protein interactions (i.e., PPIs), which are responsible for a variety of cellular functions from intracellular signaling to enzyme-substrate specificity, have been studied broadly over the past decades. Position-specific scoring matrices (PSSM) in particular are used extensively to help determine interaction specificity or candidate interaction motifs at the residue level. However, not all studies successfully report their results as a candidate interaction motif. In many cases, this may be due to a lack of suitable tools for simple analysis and motif generation. Peptide Specificity Analyst (PeSA) was developed with the goal of filling this information gap and providing an easy to use software to aid peptide array analysis and motif generation. PeSA utilizes two models of motif creation: (1) frequency-based using a user-defined peptide list, and (2) weight-based using experimental binding results. The ability to produce motifs effortlessly will make studying, interpreting and disseminating peptide specificity results in an effortless and straightforward process. |
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| Keywords: | Peptide specificity Motif Oriented peptide array library Permutation array Position-specific scoring matrix |
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