SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction

Scherbart A, Timm W, Boecker S, Nattkemper TW (2007)
In: Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07). Bielefeld, Germany.

Conference Paper | Published | English

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Abstract
In todays bioinformatics, Mass spectrometry (MS) is the key technique for the identification of proteins. A prediction of spectrum peak intensities from pre computed molecular features would pave the way to better understanding of spectrometry data and improved spectrum evaluation. We propose a neural network architecture of Local Linear Map (LLM)-type based on Self-Organizing Maps (SOMs) for peptide prototyping and learning locally tuned regression functions for peak intensity prediction in MALDI-TOF mass spectra. We obtain results comparable to those obtained by nu-Support Vector Regression and show how the SOM learning architecture provides a basis for peptide feature profiling and visualisation.
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Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07)
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Bielefeld, Germany
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Scherbart A, Timm W, Boecker S, Nattkemper TW. SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction. In: Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07). Bielefeld, Germany; 2007.
Scherbart, A., Timm, W., Boecker, S., & Nattkemper, T. W. (2007). SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction. Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07).
Scherbart, A., Timm, W., Boecker, S., and Nattkemper, T. W. (2007). “SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction” in Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07) (Bielefeld, Germany).
Scherbart, A., et al., 2007. SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction. In Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07). Bielefeld, Germany.
A. Scherbart, et al., “SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction”, Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07), Bielefeld, Germany: 2007.
Scherbart, A., Timm, W., Boecker, S., Nattkemper, T.W.: SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction. Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07). Bielefeld, Germany (2007).
Scherbart, Alexandra, Timm, Wiebke, Boecker, Sebastian, and Nattkemper, Tim Wilhelm. “SOM-based Peptide Prototyping for Mass Spectrometry Peak Intensity Prediction”. Proceedings of the 6th Workshop on Self-Organizing Maps (WSOM 07). Bielefeld, Germany, 2007.
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