Walter Fontana

31 papers A* 4B 3Journal 17Unranked 7
YearRankTypeTitle / Venue / Authors
2024 J jnl
Automated Inference of Graph Transformation Rules.
CoRR
Jakob L. Andersen, Akbar Davoodi, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
2022 J jnl
Characterizing Catalytic Mechanisms with Overlay Graphs.
CoRR
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
2022 J jnl
Probabilistic Inference with Polymerizing Biochemical Circuits.
Entropy
Yarden Katz, Walter Fontana
2022 J jnl
Representing Catalytic Mechanisms with Rule Composition.
J. Chem. Inf. Model.
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
2021 J jnl
Cayley Graphs of Semigroups Applied to Atom Tracking in Chemistry.
CoRR
Nikolai Nøjgaard, Walter Fontana, Marc Hellmuth, Daniel Merkle
2021 J jnl
Cayley Graphs of Semigroups Applied to Atom Tracking in Chemistry.
J. Comput. Biol.
Nikolai Nøjgaard, Walter Fontana, Marc Hellmuth, Daniel Merkle
2021 J jnl
Graph Transformation for Enzymatic Mechanisms.
CoRR
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
2021 J jnl
Graph transformation for enzymatic mechanisms.
Bioinform.
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
2019 — conf
RuleVis: Constructing Patterns and Rules for Rule-Based Models.
IEEE VIS (Short Papers)
David Abramov, Jasmine Otto, Mahika Dubey, Cassia Artanegara, Pierre Boutillier, Walter Fontana, Angus G. Forbes
2019 J jnl
RuleVis: Constructing Patterns and Rules for Rule-Based Models.
CoRR
David Abramov, Jasmine Otto, Mahika Dubey, Cassia Artanegara, Pierre Boutillier, Walter Fontana, Angus G. Forbes
2018 — conf
A Trace Query Language for Rule-Based Models.
CMSB
Jonathan Laurent, Héctor F. Medina-Abarca, Pierre Boutillier, Jean Yang, Walter Fontana
2018 A* conf
Counterfactual Resimulation for Causal Analysis of Rule-Based Models.
IJCAI
Jonathan Laurent, Jean Yang, Walter Fontana
2018 J jnl
Dynamic Influence Networks for Rule-Based Models.
IEEE Trans. Vis. Comput. Graph.
Angus Graeme Forbes, Andrew Burks, Kristine Lee, Xing Li, Pierre Boutillier, Jean Krivine, Walter Fontana
2018 — conf
Interactions between Causal Structures in Graph Rewriting Systems.
CREST
Ioana Cristescu, Walter Fontana, Jean Krivine
2018 J jnl
The Kappa platform for rule-based modeling.
Bioinform.
Pierre Boutillier, Mutaamba Maasha, Xing Li, Héctor F. Medina-Abarca, Jean Krivine, Jérôme Feret, Ioana Cristescu, Angus G. Forbes, Walter Fontana
2017 J jnl
Dynamic Influence Networks for Rule-based Models.
CoRR
Angus Graeme Forbes, Andrew Burks, Kristine Lee, Xing Li, Pierre Boutillier, Jean Krivine, Walter Fontana
2015 — conf
A knowledge representation meta-model for rule-based modelling of signalling networks.
DCM
Adrien Basso-Blandin, Walter Fontana, Russ Harmer
2012 — conf
Graphs, Rewriting and Pathway Reconstruction for Rule-Based Models.
FSTTCS
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jonathan Hayman, Jean Krivine, Christopher D. Thompson-Walsh, Glynn Winskel
2010 A* conf
Abstracting the Differential Semantics of Rule-Based Models: Exact and Automated Model Reduction.
LICS
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
2009 J jnl
Internal coarse-graining of molecular systems.
Proc. Natl. Acad. Sci. USA
Jérôme Feret, Vincent Danos, Jean Krivine, Russ Harmer, Walter Fontana
2009 J jnl
Rule-Based Modelling and Model Perturbation.
Trans. Comp. Sys. Biology
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
2008 B conf
Abstract Interpretation of Cellular Signalling Networks.
VMCAI
Vincent Danos, Jérôme Feret, Walter Fontana, Jean Krivine
2008 — conf
Investigation of a Biological Repair Scheme.
Workshop on Membrane Computing
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
2008 — conf
Rule-Based Modelling, Symmetries, Refinements.
FMSB
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
2008 J jnl
Sizing Up Allometric Scaling Theory.
PLoS Comput. Biol.
Van M. Savage, Eric J. Deeds, Walter Fontana
2008 A* conf
Systems biology, models, and concurrency.
POPL
Walter Fontana
2007 B conf
Rule-Based Modelling of Cellular Signalling.
CONCUR
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
2007 B conf
Scalable Simulation of Cellular Signaling Networks.
APLAS
Vincent Danos, Jérôme Feret, Walter Fontana, Jean Krivine
2005 A* conf
Logic and Systems Biology.
LICS
Walter Fontana
1999 J jnl
Complexity.
Complex.
Walter Fontana, Susan Ballati
1994 J jnl
Beyond Digital Naturalism.
Artif. Life
Walter Fontana, Günter P. Wagner, Leo W. Buss