A rich internet application for the analysis of mass spectrometry-based quantitative proteomics experiments

In proteomics, tandem mass spectrometry (LC-MS/MS) in combination with isotopic labeling techniques provides a common way to obtain a direct insight into regulation at the protein level. The 'Rich Internet Application' QuPE provides comprehensive data management and analysis functions for these experiments.

Starting with the import of mass spectra data the system guides the experimenter through the process of protein identification by database searches, the calculation of protein abundance ratios, and, in particular, the statistical evaluation of the quantification results including multivariate analysis methods such as analysis of variance or hierarchical cluster analysis. Furthermore, a well defined programming interface facilitates the integration of novel approaches.

Albaum SP, Neuweger H, Fränzel B, Lange S, Mertens D, Trötschel C, Wolters D, Kalinowski J, Nattkemper TW, Goesmann A. 2009. "Qupe--a Rich Internet Application to take a step forward in the analysis of mass spectrometry-based quantitative proteomics experiments".
Bioinformatics, 25(23), 3128-34. PUB | PubMed