Methods

Methods developed in our group:

• Hybrid kinetic Monte-Carlo MD (kMC-MD) methods.
• Coarse-Graining Methods (Dissipative Particle Dynamics).
• Adaptive bias MD methods.
• Replica-exchange MD methods
• RNA- and DNA modeling techniques based on structural alphabets.

Further methods used:

• DNA-, RNA-, and Protein Sequence analysis and alignment.
• Methods for the structural classification of protein, DNA and RNA conformations.
• Direct-Coupling Analysis (DCA) of proteins and RNA.
• Molecular Dynamics simulations of proteins, DNA and RNA.