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» Modelling Coordination in Biological Systems
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CONSTRAINTS
2008
121views more  CONSTRAINTS 2008»
14 years 9 months ago
Modeling Biological Networks by Action Languages via Answer Set Programming
We describe an approach to modeling biological networks by action languages via answer set programming. To this end, we propose an action language for modeling biological networks...
Steve Dworschak, Susanne Grell, Victoria J. Nikifo...
87
Voted
TCS
2011
14 years 4 months ago
Parameter estimation for Boolean models of biological networks
Boolean networks have long been used as models of molecular networks and play an increasingly important role in systems biology. This paper describes a software package, offered ...
Elena S. Dimitrova, Luis David García-Puent...
CAV
2012
Springer
241views Hardware» more  CAV 2012»
13 years 4 days ago
Bma: Visual Tool for Modeling and Analyzing Biological Networks
Abstract. BioModel Analyzer (bma) is a tool for modeling and analyzing biological networks. Designed with a lightweight graphical user interface, the tool facilitates usage for bio...
David Benque, Sam Bourton, Caitlin Cockerton, Byro...
CIBCB
2007
IEEE
15 years 4 months ago
Modeling protein-DNA binding time in Stochastic Discrete Event Simulation of Biological Processes
Abstract— This paper presents a parametric model to estimate the DNA-protein binding time using the DNA and protein structures and details of the binding site. To understand the ...
Preetam Ghosh, Samik Ghosh, Kalyan Basu, Sajal K. ...
96
Voted
KDD
2009
ACM
219views Data Mining» more  KDD 2009»
15 years 10 months ago
Structured correspondence topic models for mining captioned figures in biological literature
A major source of information (often the most crucial and informative part) in scholarly articles from scientific journals, proceedings and books are the figures that directly pro...
Amr Ahmed, Eric P. Xing, William W. Cohen, Robert ...