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20th CMSB 2022: Bucharest, Romania

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Ion Petre, Andrei Paun:
Computational Methods in Systems Biology - 20th International Conference, CMSB 2022, Bucharest, Romania, September 14-16, 2022, Proceedings. Lecture Notes in Computer Science 13447, Springer 2022, ISBN 978-3-031-15033-3

Chemical Reaction Networks

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Mathieu Hemery, François Fages:
Algebraic Biochemistry: A Framework for Analog Online Computation in Cells. 3-20
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Joachim Niehren, Athénaïs Vaginay, Cristian Versari:
Abstract Simulation of Reaction Networks via Boolean Networks. 21-40
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Martin Helfrich, Milan Ceska, Jan Kretínský, Stefan Marticek:
Abstraction-Based Segmental Simulation of Chemical Reaction Networks. 41-60
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Aurélien Desoeuvres, Peter Szmolyan, Ovidiu Radulescu:
Qualitative Dynamics of Chemical Reaction Networks: An Investigation Using Partial Tropical Equilibrations. 61-85

Boolean Networks

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Clémence Réda, Andrée Delahaye-Duriez:
Prioritization of Candidate Genes Through Boolean Networks. 89-121
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Samuel Pastva:
Variable Stabilisation in Boolean Monotonic Model Pools. 122-137
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Théo Roncalli, Loïc Paulevé:
Variable-Depth Simulation of Most Permissive Boolean Networks. 138-157
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Van-Giang Trinh, Belaid Benhamou, Kunihiko Hiraishi, Sylvain Soliman:
Minimal Trap Spaces of Logical Models are Maximal Siphons of Their Petri Net Encoding. 158-176

Continuous and Hybrid Models

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Eléa Thibault Greugny, Georgios N. Stamatas, François Fages:
Stability Versus Meta-stability in a Skin Microbiome Model. 179-197
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Antonio Jiménez-Pastor, Joshua Paul Jacob, Gleb Pogudin:
Exact Linear Reduction for Rational Dynamical Systems. 198-216
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Honglu Sun, Maxime Folschette, Morgan Magnin:
Limit Cycle Analysis of a Class of Hybrid Gene Regulatory Networks. 217-236

Machine Learning

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Svitlana Braichenko, Ramon Grima, Guido Sanguinetti:
Bayesian Learning of Effective Chemical Master Equations in Crowded Intracellular Conditions. 239-258
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Ville Laitinen, Leo Lahti:
Probabilistic Multivariate Early Warning Signals. 259-274

Software

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Fabricio Cravo, Matthias Függer, Thomas Nowak, Gayathri Prakash:
MobsPy: A Meta-species Language for Chemical Reaction Networks. 277-285
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Hanna Josephine Wiederanders, Anne-Lena Moor, Christoph Zechner:
Automated Generation of Conditional Moment Equations for Stochastic Reaction Networks. 286-293
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Georgios Argyris, Alberto Lluch-Lafuente, Mirco Tribastone, Max Tschaikowski, Andrea Vandin:
An Extension of ERODE to Reduce Boolean Networks By Backward Boolean Equivalence. 294-301
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Matej Troják, David Safránek, Branislav Brozmann, Lubos Brim:
eBCSgen 2.0: Modelling and Analysis of Regulated Rule-Based Systems. 302-309

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