Comparison of serum fractionation methods by data independent label-free proteomics

Publication date: Available online 9 July 2015 Source:EuPA Open Proteomics Author(s): D. Baiwir , G. Mazzucchelli , N. Smargiasso , F. Quesada-Calvo , E.De Pauw , M. Malaise , E. Louis , M.-A. Meuwis Off-line sample prefractionations applied prior to biomarker discovery proteomics are options to enable more protein identifications and detect low-abundance proteins. This work compared five commercial methods efficiency to raw serum analysis using label-free proteomics. The variability of the protein quantities determined for each process was similar to the unprefractionated serum. A 49% increase in protein identifications and 12.2% of reliable quantification were obtained. A 61 times lower Limit Of protein Quantitation was reached compared to protein concentrations observed in raw serum. The concentrations of detected proteins were confronted to estimated reference values. Graphical abstract

Source: EuPA Open Proteomics - July 10, 2015 Category: Bioinformatics Source Type: research