Quantitative Proteomics

Set-up of a common Technology-Platform of the DKFZ-ZMBH Alliance

Technology

nanoLC-ESI-QTrap System in combination with Multiple Reaction Monitoring and Internal Standardization.

Location of Equipment

ZMBH

Concept

Quantitative proteomic analyses deliver key information for the function of individual proteins and their site-specific modifications in physiological and pathophysiological conditions. One of the most powerful methods for quantitative proteomics is UPLC-ESI-MS/MS in connection with MRM (multiple reaction monitoring) and internal standardization with stable isotope labeled analogs. This principle is the established technology for drug and drug metabolite quantification in pharmaceutical research and doping control (e.g. Thevis and Schänzer, 2007). This technology is currently introduced into the field of quantitative proteomics (e.g. Stahl-Zeng et al., 2007, Picotti et al., 2010) and shall be set-up as new service within the DKFZ-ZMBH Alliance.

The set-up phases are as follows

1. The instruments dedicated for his service have been ordered in December 2009 and their installation was accomplished in February 2010 (UPLC system type Waters nanoACQUITY and a triple quadrupole mass spectrometer type Applied Biosystems QTrap 5500)
2. The next phase comprises testing of system performance for quantitative proteomics using model samples and training of technical personnel.  Then standardized study designs, analytical workflows and report formats will be worked out. This phase is scheduled for the time March 2010 to December 2010.
3. Expected Start of Service for Quantitative Proteomics: January 2011.

Access

The Service ‘Quantitative Proteomics by Mass Spectrometry’ shall be open to all Research Groups on the University Campus Heidelberg. With respect to the complexity of the approach an individual counselling will be performed for each project. Prices for the service will be developed during the set-up of the platform.

Operators and Contacts

Dr. Thomas Ruppert
Zentrale Einheit Biomolekulare Chemie Zentrum für Molekulare Biologie Heidelberg (ZBMH)
Im Neuenheimer Feld 282
Heidelberg
Tel.  06221 54-6895

Dr. Martina Schnölzer / Dr. Uwe Warnken
Arbeitsgruppe Funktionelle Proteomanalyse / Protein Analysis Service
Deutsches Krebsforschungszentrum (DKFZ)
Im Neuenheimer Feld 580
69120 Heidelberg
Tel. 06221 42-4566

Prof. Dr. Wolf-Dieter Lehmann
Molekulare Strukturanalytik
Deutsches Krebsforschungszentrum (DKFZ)
Im Neuenheimer Feld 280
69120 Heidelberg
Tel.  06221 42-4563