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» Computer algebra in systems biology
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ENTCS
2006
155views more  ENTCS 2006»
15 years 7 months ago
Biomolecular Agents as Multi-behavioural Concurrent Objects
In recent years, there has been increasing interest in computational models of biological systems based on various calculi of communicating processes, such as the stochastic pi-ca...
Denys Duchier, Céline Kuttler
BMCBI
2008
155views more  BMCBI 2008»
15 years 7 months ago
ComPath: comparative enzyme analysis and annotation in pathway/subsystem contexts
Background: Once a new genome is sequenced, one of the important questions is to determine the presence and absence of biological pathways. Analysis of biological pathways in a ge...
Kwangmin Choi, Sun Kim
177
Voted
PSB
2010
15 years 4 months ago
Synthesis of Pharmacokinetic Pathways through Knowledge Acquisition and Automated Reasoning
teness of the knowledge bases, our approach also obtains facts through automated extraction from Medline abstracts. An essential component of our approach is to apply logical reaso...
Luis Tari, Saadat Anwar, Shanshan Liang, Jörg...
208
Voted
TCSB
2010
15 years 5 months ago
Rule-Based Modeling of Transcriptional Attenuation at the Tryptophan Operon
Transcriptional attenuation at E.coli’s tryptophan operon is a prime example of RNA-mediated gene regulation. In this paper, we present a discrete stochastic model for this pheno...
Céline Kuttler, Cédric Lhoussaine, M...
PACT
2007
Springer
16 years 1 months ago
A Stochastic Semantics for BioAmbients
We consider BioAmbients, a calculus for specifying biological entities and for simulating and analysing their behaviour. We extend BioAmbients to take quantitative information into...
Linda Brodo, Pierpaolo Degano, Corrado Priami