Abstract
Multiple reaction monitoring (MRM) is a mass spectrometric method to quantify a specified set of proteins. In this paper, we identify a problem at the core of MRM peptide quantification accuracy. In mathematical terms, the problem is to find for a given matrix a submatrix with best condition number. We show this problem to be NP-hard, and we propose a greedy heuristic. Our numerical experiments show this heuristic to be orders of magnitude better than currently used methods.
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Šrámek, R., Fischer, B., Vicari, E., Widmayer, P. (2009). Optimal Transitions for Targeted Protein Quantification: Best Conditioned Submatrix Selection. In: Ngo, H.Q. (eds) Computing and Combinatorics. COCOON 2009. Lecture Notes in Computer Science, vol 5609. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-02882-3_29
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DOI: https://doi.org/10.1007/978-3-642-02882-3_29
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-02881-6
Online ISBN: 978-3-642-02882-3
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