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BMCBI
2008

PatternLab for proteomics: a tool for differential shotgun proteomics

13 years 2 months ago
PatternLab for proteomics: a tool for differential shotgun proteomics
Background: A goal of proteomics is to distinguish between states of a biological system by identifying protein expression differences. Liu et al. demonstrated a method to perform semirelative protein quantitation in shotgun proteomics data by correlating the number of tandem mass spectra obtained for each protein, or "spectral count", with its abundance in a mixture; however, two issues have remained open: how to normalize spectral counting data and how to efficiently pinpoint differences between profiles. Moreover, Chen et al. recently showed how to increase the number of identified proteins in shotgun proteomics by analyzing samples with different MScompatible detergents while performing proteolytic digestion. The latter introduced new challenges as seen from the data analysis perspective, since replicate readings are not acquired. Results: To address the open issues above, we present a program termed PatternLab for proteomics. This program implements existing strategies ...
Paulo C. Carvalho, Juliana S. G. Fischer, Emily I.
Added 09 Dec 2010
Updated 09 Dec 2010
Type Journal
Year 2008
Where BMCBI
Authors Paulo C. Carvalho, Juliana S. G. Fischer, Emily I. Chen, John R. Yates III, Valmir C. Barbosa
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