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ARC
2007
Springer
140views Hardware» more  ARC 2007»
15 years 10 months ago
Reconfigurable Computing for Accelerating Protein Folding Simulations
Abstract. This paper presents a methodology for the design of a reconfigurable computing system applied to a complex problem in molecular Biology: the protein folding problem. An e...
Nilton B. Armstrong, Heitor S. Lopes, Carlos R. Er...
BMCBI
2010
123views more  BMCBI 2010»
15 years 6 months ago
Computationally efficient flux variability analysis
Background: Flux variability analysis is often used to determine robustness of metabolic models in various simulation conditions. However, its use has been somehow limited by the ...
Steinn Gudmundsson, Ines Thiele
ALMOB
2008
95views more  ALMOB 2008»
15 years 6 months ago
A stitch in time: Efficient computation of genomic DNA melting bubbles
Background: It is of biological interest to make genome-wide predictions of the locations of DNA melting bubbles using statistical mechanics models. Computationally, this poses th...
Eivind Tøstesen
ICCS
2001
Springer
15 years 11 months ago
High-Performance Algorithm Engineering for Computational Phylogenetics
Abstract. Phylogeny reconstruction from molecular data poses complex optimization problems: almost all optimization models are NP-hard and thus computationally intractable. Yet app...
Bernard M. E. Moret, David A. Bader, Tandy Warnow
SCFBM
2008
112views more  SCFBM 2008»
15 years 5 months ago
The Multiscale Systems Immunology project: software for cell-based immunological simulation
Background: Computer simulations are of increasing importance in modeling biological phenomena. Their purpose is to predict behavior and guide future experiments. The aim of this ...
Faheem Mitha, Timothy A. Lucas, Feng Feng, Thomas ...