EasyProt — An easy-to-use graphical platform for proteomics data analysis
2013
Gluck, Florent | Hoogland, Christine | Antinori, Paola | Robin, Xavier | Nikitin, Frederic | Zufferey, Anne | Pasquarello, Carla | Fétaud, Vanessa | Dayon, Loïc | Müller, Markus | Lisacek, Frederique | Geiser, Laurent | Hochstrasser, Denis | Sanchez, Jean-Charles | Scherl, Alexander
High throughput protein identification and quantification analysis based on mass spectrometry are fundamental steps in most proteomics projects. Here, we present EasyProt (available at http://easyprot.unige.ch), a new platform for mass spectrometry data processing, protein identification, quantification and unexpected post-translational modification characterization. EasyProt provides a fully integrated graphical experience to perform a large part of the proteomic data analysis workflow. Our goal was to develop a software platform that would fulfill the needs of scientists in the field, while emphasizing ease-of-use for non-bioinformatician users. Protein identification is based on OLAV scoring schemes and protein quantification is implemented for both, isobaric labeling and label-free methods. Additional features are available, such as peak list processing, isotopic correction, spectra filtering, charge-state deconvolution and spectra merging. To illustrate the EasyProt platform, we present two identification and quantification workflows based on isobaric tagging and label-free methods.
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