Correlation and convolution analysis of peptide mass spectra

Analytical Chemistry
Matthew J SniatynskiJuergen Kast

Abstract

As proteomics continues to establish itself as an effective postgenomic research tool, there is an increasingly urgent need for efficient, automated analysis techniques capable of effectively dealing with the vast amounts of data generated via mass spectrometry. Wholesale analysis packages, often used to deal with these enormous amounts of data, may benefit from supplementary, targeted analyses as current research begins to emphasize posttranscriptional/translational protein modifications, protein truncations, and poorly characterized mutations. We demonstrate the application of a new analysis technique based on mathematical correlation that is computationally efficient and robust against different instruments, noise levels, and experimental conditions. We have previously shown that this technique is able to extract pertinent mass shift signals from MS data, corresponding to the neutral loss of a modification from a peptide, e.g., a loss of 79.97 Th from phosphorylated tyrosine. Here we show that an extension of this method is applicable to MS and MS/MS data in general, allowing visualization of ions that produce a particular mass shift signal, be it from differential stable isotope labeling, overlap of fragment ions in a serie...Continue Reading

References

Nov 16, 2002·Analytical Chemistry·Michael J MacCossJohn R Yates
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Citations

Aug 26, 2006·Analytical and Bioanalytical Chemistry·Peter SchubertJuergen Kast
Apr 29, 2008·Journal of Mass Spectrometry : JMS·Brent W SutherlandJuergen Kast
Feb 17, 2010·Analytical Biochemistry·Piotr StefanowiczZbigniew Szewczuk
Jun 23, 2011·Analytical Chemistry·Tyler A ZimmermanEdwin De Pauw
Jan 3, 2007·Journal of Mass Spectrometry : JMS
Nov 20, 2009·Rapid Communications in Mass Spectrometry : RCM·Monika KijewskaZbigniew Szewczuk

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