Peakmatch: a simple and robust method for peak list matching
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Peak lists are commonly used in NMR as input data for various software tools such as automatic assignment and structure calculation programs. Inconsistencies of chemical shift referencing among different peak lists or between peak and chemical shift lists can cause severe problems during peak assignment. Here we present a simple and robust tool to achieve self-consistency of the chemical shift referencing among a set of peak lists. The Peakmatch algorithm matches a set of peak lists to a specified reference peak list, neither of which have to be assigned. The chemical shift referencing offset between two peak lists is determined by optimizing an assignment-free match score function using either a complete grid search or downhill simplex optimization. It is shown that peak lists from many different types of spectra can be matched reliably as long as they contain at least two corresponding dimensions. Using a simulated peak list, the Peakmatch algorithm can also be used to obtain the optimal agreement between a chemical shift list and experimental peak lists. Combining these features makes Peakmatch a useful tool that can be applied routinely before automatic assignment or structure calculation in order to obtain an optimized input data set.
KeywordsAutomated assignment Peak list Peak alignment Spectrum referencing CYANA
We thank Dr. T. Ikeya, Dr. M. Takeda, and Prof. M. Kainosho for the DsbA peak lists. We gratefully acknowledge financial support by the Lichtenberg program of the Volkswagen Foundation, the Deutsche Forschungsgemeinschaft (DFG), and the Bio-NMR project of the European Commission.
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