• Center for Complex Quantum Systems (CCQ)
• Stellar Astrophysics Centre (SAC)
• Centre for Quantum Geometry of Moduli Spaces (QGM) - established in 2009
• Center for DNA Nanotechnology (CDNA)  - established in 2007
• Centre for Carbohydrate Recognition and Signalling (CARB)  - established in 2007
• Center for Massive Data Algorithmics (MADALGO)  - established in 2007
• Centre for Membrane Pumps in Cells and Disease (PUMPKIN)  - established in 2007
• Center for Insoluble Protein Structures (INSPIN) - established in 2005
• Centre for Geomicrobiology - established in 2007
• Centre for mRNP Biogenesis and Metabolism -  established in 2005
• Centre for Oxygen Microscopy and Imaging  (COMI) - established in i 2005
• Water and Salt Research Centre  -  established in 2000
• Centre for Catalysis -  established in 1997/1998
• Network in Mathematical Physics and Stochastics  (MaPhySto) -  established in 1997/1998
• Centre for Atomic Physics  (ACAP) -  established in 1993/1994
• Basic Research in Computer Science (BRICS)  -  established in 1993/1994