Walter Fontana

Publication Activity (10 Years)

Years Active: 1994-2024
Publications (10 Years): 16

Top Topics

Rule Based Systems

Rewriting Systems

Probabilistic Inference

Top Venues

J. Comput. Biol.

Publications

Jakob L. Andersen, Akbar Davoodi, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
Automated Inference of Graph Transformation Rules. CoRR (2024)
Yarden Katz, Walter Fontana
Probabilistic Inference with Polymerizing Biochemical Circuits. Entropy 24 (5) (2022)
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
Characterizing Catalytic Mechanisms with Overlay Graphs. CoRR (2022)
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
Representing Catalytic Mechanisms with Rule Composition. J. Chem. Inf. Model. 62 (22) (2022)
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
Graph Transformation for Enzymatic Mechanisms. CoRR (2021)
Jakob L. Andersen, Rolf Fagerberg, Christoph Flamm, Walter Fontana, Juraj Kolcák, Christophe V. F. P. Laurent, Daniel Merkle, Nikolai Nøjgaard
Graph transformation for enzymatic mechanisms. Bioinform. 37 (Supplement) (2021)
Nikolai Nøjgaard, Walter Fontana, Marc Hellmuth, Daniel Merkle
Cayley Graphs of Semigroups Applied to Atom Tracking in Chemistry. CoRR (2021)
Nikolai Nøjgaard, Walter Fontana, Marc Hellmuth, Daniel Merkle
Cayley Graphs of Semigroups Applied to Atom Tracking in Chemistry. J. Comput. Biol. 28 (7) (2021)
David Abramov, Jasmine Otto, Mahika Dubey, Cassia Artanegara, Pierre Boutillier, Walter Fontana, Angus G. Forbes
RuleVis: Constructing Patterns and Rules for Rule-Based Models. CoRR (2019)
David Abramov, Jasmine Otto, Mahika Dubey, Cassia Artanegara, Pierre Boutillier, Walter Fontana, Angus G. Forbes
RuleVis: Constructing Patterns and Rules for Rule-Based Models. IEEE VIS (Short Papers) (2019)
Angus Graeme Forbes, Andrew Burks, Kristine Lee, Xing Li, Pierre Boutillier, Jean Krivine, Walter Fontana
Dynamic Influence Networks for Rule-Based Models. IEEE Trans. Vis. Comput. Graph. 24 (1) (2018)
Jonathan Laurent, Jean Yang, Walter Fontana
Counterfactual Resimulation for Causal Analysis of Rule-Based Models. IJCAI (2018)
Pierre Boutillier, Mutaamba Maasha, Xing Li, Héctor F. Medina-Abarca, Jean Krivine, Jérôme Feret, Ioana Cristescu, Angus G. Forbes, Walter Fontana
The Kappa platform for rule-based modeling. Bioinform. 34 (13) (2018)
Jonathan Laurent, Héctor F. Medina-Abarca, Pierre Boutillier, Jean Yang, Walter Fontana
A Trace Query Language for Rule-Based Models. CMSB (2018)
Ioana Cristescu, Walter Fontana, Jean Krivine
Interactions between Causal Structures in Graph Rewriting Systems. CREST@ETAPS (2018)
Angus Graeme Forbes, Andrew Burks, Kristine Lee, Xing Li, Pierre Boutillier, Jean Krivine, Walter Fontana
Dynamic Influence Networks for Rule-based Models. CoRR (2017)
Adrien Basso-Blandin, Walter Fontana, Russ Harmer
A knowledge representation meta-model for rule-based modelling of signalling networks. DCM (2015)
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jonathan Hayman, Jean Krivine, Christopher D. Thompson-Walsh, Glynn Winskel
Graphs, Rewriting and Pathway Reconstruction for Rule-Based Models. FSTTCS (2012)
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
Abstracting the Differential Semantics of Rule-Based Models: Exact and Automated Model Reduction. LICS (2010)
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
Rule-Based Modelling and Model Perturbation. Trans. Comp. Sys. Biology 11 (2009)
Jérôme Feret, Vincent Danos, Jean Krivine, Russ Harmer, Walter Fontana
Internal coarse-graining of molecular systems. Proc. Natl. Acad. Sci. USA 106 (16) (2009)
Walter Fontana
Systems biology, models, and concurrency. POPL (2008)
Vincent Danos, Jérôme Feret, Walter Fontana, Jean Krivine
Abstract Interpretation of Cellular Signalling Networks. VMCAI (2008)
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
Rule-Based Modelling, Symmetries, Refinements. FMSB (2008)
Van M. Savage, Eric J. Deeds, Walter Fontana
Sizing Up Allometric Scaling Theory. PLoS Comput. Biol. 4 (9) (2008)
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
Investigation of a Biological Repair Scheme. Workshop on Membrane Computing (2008)
Vincent Danos, Jérôme Feret, Walter Fontana, Russell Harmer, Jean Krivine
Rule-Based Modelling of Cellular Signalling. CONCUR (2007)
Vincent Danos, Jérôme Feret, Walter Fontana, Jean Krivine
Scalable Simulation of Cellular Signaling Networks. APLAS (2007)
Walter Fontana
Logic and Systems Biology. LICS (2005)
Walter Fontana, Susan Ballati
Complexity. Complex. 4 (3) (1999)
Walter Fontana, Günter P. Wagner, Leo W. Buss
Beyond Digital Naturalism. Artif. Life 1 (1-2) (1994)