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» Dynamic simulation of regulatory networks using SQUAD
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SIAMSC
2008
113views more  SIAMSC 2008»
15 years 1 months ago
An Efficient and Robust Method for Simulating Two-Phase Gel Dynamics
We develop a computational method for simulating models of gel dynamics where the gel is described by two phases, a networked polymer and a fluid solvent. The models consist of tra...
Grady B. Wright, Robert D. Guy, Aaron L. Fogelson
IJON
2006
91views more  IJON 2006»
15 years 1 months ago
Event-based simulation strategy for conductance-based synaptic interactions and plasticity
The immense computational and adaptive power of the cerebral cortex emerges from the collective dynamics of large populations of interacting neurons. Thus, for theoretical investi...
Michelle Rudolph, Alain Destexhe
BIOINFORMATICS
2002
146views more  BIOINFORMATICS 2002»
15 years 1 months ago
A duplication growth model of gene expression networks
Motivation: There has been considerable interest in developing computational techniques for inferring genetic regulatory networks from whole-genome expression profiles. When expre...
Ashish Bhan, David J. Galas, T. Gregory Dewey
EDBT
2009
ACM
241views Database» more  EDBT 2009»
15 years 8 months ago
GADDI: distance index based subgraph matching in biological networks
Currently, a huge amount of biological data can be naturally represented by graphs, e.g., protein interaction networks, gene regulatory networks, etc. The need for indexing large ...
Shijie Zhang, Shirong Li, Jiong Yang
HIPC
2003
Springer
15 years 7 months ago
Performance Analysis of Blue Gene/L Using Parallel Discrete Event Simulation
High performance computers currently under construction, such as IBM’s Blue Gene/L, consisting of large numbers (64K) of low cost processing elements with relatively small local...
Ed Upchurch, Paul L. Springer, Maciej Brodowicz, S...