Algorithms for differential quantification using HPLC/MS

Knut Reinert, Free University, Berlin

In the talk we describe methods problems and algorithms for differential quantification using (multi)-dimensional HPLC/MS experiments. The algorithms are embedded in the freely available software library OpenMS which is currently under development at the Freie Universität Berlin and the Eberhardt-Karls Universität Tübingen. We give an overview of the goals and problems in differential proteomics with HPLC and then describe in more detail the implemented approaches for signal processing, peak detection and data reduction currently employed in OpenMS.