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BIBE
2007
IEEE
113views Bioinformatics» more  BIBE 2007»
14 years 2 months ago
Quantitative and Probabilistic Modeling in Pathway Logic
—This paper presents a study of possible extensions of Pathway Logic to represent and reason about semiquantitative and probabilistic aspects of biological processes. The underly...
Alessandro Abate, Yu Bai, Nathalie Sznajder, Carol...
FPGA
2004
ACM
174views FPGA» more  FPGA 2004»
14 years 1 months ago
A compiled accelerator for biological cell signaling simulations
The simulation of large systems of biochemical reactions is a key part of research into molecular signaling and information processing in biological cells. However, it can be impr...
John F. Keane, Christopher Bradley, Carl Ebeling
ML
2008
ACM
150views Machine Learning» more  ML 2008»
13 years 7 months ago
Learning probabilistic logic models from probabilistic examples
Abstract. We revisit an application developed originally using Inductive Logic Programming (ILP) by replacing the underlying Logic Program (LP) description with Stochastic Logic Pr...
Jianzhong Chen, Stephen Muggleton, José Car...
CMSB
2007
Springer
14 years 1 months ago
A Unifying Framework for Modelling and Analysing Biochemical Pathways Using Petri Nets
We give a description of a Petri net-based framework for modelling and analysing biochemical pathways, which unifies the qualitative, stochastic and continuous paradigms. Each per...
David Gilbert, Monika Heiner, Sebastian Lehrack
COLT
2008
Springer
13 years 9 months ago
Learning Acyclic Probabilistic Circuits Using Test Paths
We define a model of learning probabilistic acyclic circuits using value injection queries, in which an arbitrary subset of wires is set to fixed values, and the value on the sing...
Dana Angluin, James Aspnes, Jiang Chen, David Eise...