Computational Methods for Fragment Spectrum Interpretation: Computational Interpretation of Tandem MS Spectra Including Fragment Ions with Post-Translational Modifications - Softcover

Rameseder, Jonathan; Martens, Lennart

Softcover

ISBN 10: 3639228588 ISBN 13: 9783639228588

Publisher: VDM Verlag Dr. Müller, 2010

Synopsis

Post-translational modifications (PTMs) are of critical importance for a vast range of cellular processes such as growth control and signal transduction. Mass spectrometry (MS) can shed light on the characteristics of PTMs to gain insight into the mechanisms of numerous diseases including cancer. However, interpretation of tandem MS spectra including fragment ions with PTMs from high-throughput experiments is a complex challenge. The high number and diversity of known PTMs as well as suboptimal quality of spectra compromise the identification of PTMs in MS experiments. In this book, an efficient algorithm for the computational interpretation of tandem MS spectra including fragment ions with PTMs is described. Information on both precursor and fragment ion level is utilized and an arbitrary number of PTMs is considered. A robust statistical noise intensity model is developed to compensate for low spectrum quality. Finally, the algorithm is successfully applied on the fragment spectra in the PRIDE proteomics data repository to render it suitable for statistical machine learning investigations.

About this title

About the Author

Jonathan Rameseder is pursuing his Ph.D. at M.I.T and conducted research at Singapore's A*STAR, the ETH Zurich, the Friedrich Miescher Institute and the European Bioinformatics Institute. He received numerous prestigious awards including the Fulbright Science and Technology Grant. Lennart Martens is Professor of Systems Biology at Ghent University.

Edition details

• Publisher: VDM Verlag Dr. Müller
• Publication date: 2010
• Language: English
• ISBN 10: 3639228588
• ISBN 13: 9783639228588
• Binding: Paperback
• Number of pages: 56