Frank Berg1, Kai Fritzemeier1, Bernard Delanghe1, Rosa Viner2, Richard A. Scheltema3,4
International Hupo 2020
Crosslinking mass-spectrometry (XL-MS) has become a powerful structural biology application for protein structure determination and protein interaction mapping. With our analysis software pipeline XlinkX we bridge this highly specialized technique to non-expert laboratories worldwide on the easy-to-use and error tolerant Proteome Discoverer platform. Advancing insights into controlling FDR levels, filtering false positives, and connecting to the structural context require constant improvements. Here we present extensions to XlinkX/PD that result in low false positive rates and enabling easy export of the results for structure mapping.
1. Thermo Fisher Scientific, Hannah-Kunath StraÎ²e 11, 28199 Bremen, Germany
2. Thermo Fisher Scientific, 355 River Oaks Pkwy., San Jose, California 95134, United States
3. Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.
4. Netherlands Proteomics Centre, Padualaan 8, 3584 CH Utrecht, The Netherlands.