Walter Fontana

According to our database, Walter Fontana authored at least 26 papers between 1994 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2022

Representing Catalytic Mechanisms with Rule Composition.

Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard

J. Chem. Inf. Model., 2022

Probabilistic Inference with Polymerizing Biochemical Circuits.

Yarden Katz, Walter Fontana

Entropy, 2022

Characterizing Catalytic Mechanisms with Overlay Graphs.

Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard

CoRR, 2022

2021

Cayley Graphs of Semigroups Applied to Atom Tracking in Chemistry.

Nikolai Nøjgaard, Walter Fontana, Marc Hellmuth, Daniel Merkle

J. Comput. Biol., 2021

Graph transformation for enzymatic mechanisms.

Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard

Bioinform., 2021

2019

RuleVis: Constructing Patterns and Rules for Rule-Based Models.

David Abramov, Jasmine Otto, Mahika Dubey, Cassia Artanegara, Pierre Boutillier, Walter Fontana, Angus G. Forbes

Proceedings of the 30th IEEE Visualization Conference, 2019

2018

Dynamic Influence Networks for Rule-Based Models.

Angus Graeme Forbes, Andrew Burks, Kristine Lee, Xing Li, Pierre Boutillier, Jean Krivine, Walter Fontana

IEEE Trans. Vis. Comput. Graph., 2018

Interactions between Causal Structures in Graph Rewriting Systems.

Ioana Cristescu, Walter Fontana, Jean Krivine

Proceedings of the Proceedings 3rd Workshop on formal reasoning about Causation, 2018

The Kappa platform for rule-based modeling.

Pierre Boutillier, Mutaamba Maasha, Xing Li, Héctor F. Medina-Abarca, Jean Krivine, Jérôme Feret, Ioana Cristescu, Angus G. Forbes, Walter Fontana

Bioinform., 2018

Counterfactual Resimulation for Causal Analysis of Rule-Based Models.

Jonathan Laurent, Jean Yang, Walter Fontana

Proceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence, 2018

A Trace Query Language for Rule-Based Models.

Jonathan Laurent, Héctor F. Medina-Abarca, Pierre Boutillier, Jean Yang, Walter Fontana

Proceedings of the Computational Methods in Systems Biology, 2018

2015

A knowledge representation meta-model for rule-based modelling of signalling networks.

Adrien Basso-Blandin, Walter Fontana, Russ Harmer

Proceedings of the Eleventh International Workshop on Developments in Computational Models, 2015

2012

Graphs, Rewriting and Pathway Reconstruction for Rule-Based Models.

Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jonathan Hayman, Jean Krivine, Christopher D. Thompson-Walsh, Glynn Winskel

Proceedings of the IARCS Annual Conference on Foundations of Software Technology and Theoretical Computer Science, 2012

2010

Abstracting the Differential Semantics of Rule-Based Models: Exact and Automated Model Reduction.

Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine

Proceedings of the 25th Annual IEEE Symposium on Logic in Computer Science, 2010

2009

Rule-Based Modelling and Model Perturbation.

Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine

Trans. Comp. Sys. Biology, 2009

Internal coarse-graining of molecular systems.

Jérôme Feret, Vincent Danos, Jean Krivine, Russ Harmer, Walter Fontana

Proc. Natl. Acad. Sci. USA, 2009

2008

Sizing Up Allometric Scaling Theory.

Van M. Savage, Eric J. Deeds, Walter Fontana

PLoS Comput. Biol., 2008

Abstract Interpretation of Cellular Signalling Networks.

Vincent Danos, Jérôme Feret, Walter Fontana, Jean Krivine

Proceedings of the Verification, 2008

Systems biology, models, and concurrency.

Walter Fontana

Proceedings of the 35th ACM SIGPLAN-SIGACT Symposium on Principles of Programming Languages, 2008

Investigation of a Biological Repair Scheme.

Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine

Proceedings of the Membrane Computing - 9th International Workshop, 2008

Rule-Based Modelling, Symmetries, Refinements.

Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine

Proceedings of the Formal Methods in Systems Biology, First International Workshop, 2008

2007

Rule-Based Modelling of Cellular Signalling.

Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine

Proceedings of the CONCUR 2007 - Concurrency Theory, 18th International Conference, 2007

Scalable Simulation of Cellular Signaling Networks.

Vincent Danos, Jérôme Feret, Walter Fontana, Jean Krivine

Proceedings of the Programming Languages and Systems, 5th Asian Symposium, 2007

2005

Logic and Systems Biology.

Walter Fontana

Proceedings of the 20th IEEE Symposium on Logic in Computer Science (LICS 2005), 2005

1999

Complexity.

Walter Fontana, Susan Ballati

Complex., 1999

1994

Beyond Digital Naturalism.

Walter Fontana, Günter P. Wagner, Leo W. Buss

Artif. Life, 1994