17 citations · 38 across the 6 of their papers we have counts for
7 papers
Memory efficient RNA energy landscape exploration
Martin Mann, Marcel Kucharik, Christoph Flamm +1
Energy landscapes provide a valuable means for studying the folding dynamics of short RNA molecules in detail by modeling all possible structures and their transitions. Higher abst…
The Graph Grammar Library - a generic framework for chemical graph rewrite systems
Martin Mann, Heinz Ekker, Christoph Flamm
Graph rewrite systems are powerful tools to model and study complex problems in various fields of research. Their successful application to chemical reaction modelling on a molecul…
Lattice model refinement of protein structures
Martin Mann, Alessandro Dal Palù
To find the best lattice model representation of a given full atom protein structure is a hard computational problem. Several greedy methods have been suggested where results are u…
Equivalence Classes of Optimal Structures in HP Protein Models Including Side Chains
Martin Mann, Rolf Backofen, Sebastian Will
Lattice protein models, as the Hydrophobic-Polar (HP) model, are a common abstraction to enable exhaustive studies on structure, function, or evolution of proteins. A main issue is…
Efficient exploration of discrete energy landscapes
Martin Mann, Konstantin Klemm
Many physical and chemical processes, such as folding of biopolymers, are best described as dynamics on large combinatorial energy landscapes. A concise approximate description of…
Decomposition Techniques for Subgraph Matching
Stephane Zampelli, Martin Mann, Yves Deville +1
In the constraint programming framework, state-of-the-art static and dynamic decomposition techniques are hard to apply to problems with complete initial constraint graphs. For suc…