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Data Analysis

We apply the open-source quantitative proteomics software MaxQuant for analyzing large-scale mass-spectrometric data. It includes the Andromeda search engine and supports label-free quantification of proteomes as well as all main labeling techniques like SILAC, Di-methyl, TMT, and iTRAQ. We further offer a standard analysis of the raw data as well as case to case oriented bioinformatics service. For this we use the Perseus framework as well as R and Python for further statistical and bioinformatics analyses, data annotation and visualization.

Data and Experiment Information Storage

The raw data and results are stored and backed up on servers of the regional computing center of the University of Cologne (RRZK) using a Network-attached storage (NAS) system. A web-based sample submission portal connected to a SQL-database is used for project and sample management. It provides seperate interfaces for users and facility staff, facilitating meta data storage. Furthermore, users can check the live status of their samples and are automatically notified by email as soon as their results are ready for download.

Dr. Christian Frese
Head of Proteomics Facility CECAD
Tel.  +49 221 478 84013
cfrese[at]uni-koeln.de

CECAD Research Institute
Universität zu Köln
Joseph-Stelzmann-Str. 26
50931 Köln

Dr. Christian Frese