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» Programming in Biomolecular Computation
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PPOPP
2006
ACM
14 years 2 months ago
Performance characterization of molecular dynamics techniques for biomolecular simulations
Large-scale simulations and computational modeling using molecular dynamics (MD) continues to make significant impacts in the field of biology. It is well known that simulations...
Sadaf R. Alam, Jeffrey S. Vetter, Pratul K. Agarwa...
WEA
2005
Springer
176views Algorithms» more  WEA 2005»
14 years 1 months ago
High-Performance Algorithm Engineering for Large-Scale Graph Problems and Computational Biology
Abstract. Many large-scale optimization problems rely on graph theoretic solutions; yet high-performance computing has traditionally focused on regular applications with high degre...
David A. Bader
CEC
2007
IEEE
14 years 12 days ago
Psim: a simulator for biomolecular dynamics based on P systems
Metabolic P systems, shortly MP systems, are a special class of P systems, introduced for expressing biological metabolism. Their dynamics is computed by metabolic algorithms which...
Luca Bianco, Vincenzo Manca, Luca Marchetti, Miche...
ISMB
1993
13 years 9 months ago
Finding Relevant Biomolecular Features
Manymethods for analyzing biological problems are constrained by problemsize. Theability to distinguish betweenrelevant andirrelevant features of a problemmay allowa problemto be ...
Lawrence Hunter, Teri E. Klein
APCCM
2009
13 years 9 months ago
Conceptional Modeling and Analysis of Spatio-Temporal Processes in Biomolecular Systems
In life science, deeper understanding of biomolecular systems is acquired by computational modeling and analysis. For the modeling of several kinds of reaction networks, e.g. sign...
Andreas Schäfer, Mathias John