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FCCM
2004
IEEE
143views VLSI» more  FCCM 2004»
13 years 10 months ago
Reconfigurable Molecular Dynamics Simulator
Current high-performance applications are typically implemented on large-scale general-purpose distributed or multiprocessing systems often based on commodity microprocessors. Fie...
Navid Azizi, Ian Kuon, Aaron Egier, Ahmad Darabiha...
HIPC
2007
Springer
14 years 12 days ago
Molecular Dynamics Simulations on Commodity GPUs with CUDA
Molecular dynamics simulations are a common and often repeated task in molecular biology. The need for speeding up this treatment comes from the requirement for large system simula...
Weiguo Liu, Bertil Schmidt, Gerrit Voss, Wolfgang ...
FPL
2007
Springer
150views Hardware» more  FPL 2007»
13 years 10 months ago
Discrete Event Simulation of Molecular Dynamics with Configurable Logic
: Molecular dynamics simulation based on discrete event simulation (DMD) is emerging as an alternative to time-step driven molecular dynamics (MD). DMD uses simplified discretized ...
Josh Model, Martin C. Herbordt
IPMI
2007
Springer
14 years 7 months ago
Rao-Blackwellized Marginal Particle Filtering for Multiple Object Tracking in Molecular Bioimaging
Modern live cell fluorescence microscopy imaging systems, used abundantly for studying intra-cellular processes in vivo, generate vast amounts of noisy image data that cannot be pr...
Ihor Smal, Katharina Draegestein, Niels Galjart, W...
RECOMB
2009
Springer
14 years 6 months ago
An Online Approach for Mining Collective Behaviors from Molecular Dynamics Simulations
Collective behavior involving distally separate regions in a protein is known to widely affect its function. In this paper, we present an online approach to study and characterize ...
Arvind Ramanathan, Pratul K. Agarwal, Maria Kurnik...