Schloss Dagstuhl - Leibniz-Zentrum für Informatik GmbH Schloss Dagstuhl - Leibniz-Zentrum für Informatik GmbH scholarly article en Lange, Eva; Gröpl, Clemens; Kohlbacher, Oliver; Hildebrandt, Andreas License
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URN: urn:nbn:de:0030-drops-5358

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High-accuracy peak picking of proteomics data



A new peak picking algorithm for the analysis of mass spectrometric (MS) data is presented. It is independent of the underlying machine or ionization method, and is able to resolve highly convoluted and asymmetric signals. The method uses the multiscale nature of spectrometric data by first detecting the mass peaks in the wavelet-transformed signal before a given asymmetric peak function is fitted to the raw data. In an optional third stage, the resulting fit can be further improved using techniques from nonlinear optimization. In contrast to currently established techniques (e.g. SNAP, Apex) our algorithm is able to separate overlapping peaks of multiply charged peptides in ESI-MS data of low resolution. Its improved accuracy with respect to peak positions makes it a valuable preprocessing method for MS-based identification and quantification experiments. The method has been validated on a number of different annotated test cases, where it compares favorably in both runtime and accuracy with currently established techniques. An implementation of the algorithm is freely available in our open source framework OpenMS (

BibTeX - Entry

  author =	{Eva Lange and Clemens Gr{\"o}pl and Oliver Kohlbacher and Andreas Hildebrandt},
  title =	{High-accuracy peak picking of proteomics data},
  booktitle =	{Computational Proteomics},
  year =	{2006},
  editor =	{Christian G. Huber and Oliver Kohlbacher and Knut Reinert},
  number =	{05471},
  series =	{Dagstuhl Seminar Proceedings},
  ISSN =	{1862-4405},
  publisher =	{Internationales Begegnungs- und Forschungszentrum f{\"u}r Informatik (IBFI), Schloss Dagstuhl, Germany},
  address =	{Dagstuhl, Germany},
  URL =		{},
  annote =	{Keywords: Mass spectrometry, peak detection, peak picking}

Keywords: Mass spectrometry, peak detection, peak picking
Seminar: 05471 - Computational Proteomics
Issue date: 2006
Date of publication: 03.05.2006

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