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Rule-based modeling of erbB signaling

Russ Harmer
ASCB Annual Meeting (SIG on Systems Biology of Receptor Tyrosine Kinase Networks), Dec 2007, Washington DC, United States
Communication dans un congrès hal-00695285v1
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Rule-based modelling and tunable resolution

Russ Harmer
EPTCS, 2009, 9, pp.65-72
Article dans une revue hal-00694488v1

Rule-based modelling of cellular signalling

Russ Harmer
Biopathways 10, Jun 2009, Stockholm, Sweden
Communication dans un congrès hal-00695291v1
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Schema validation and evolution for graph databases

Angela Bonifati , Peter Furniss , Alastair Green , Russ Harmer , Eugenia Oshurko , et al.
ER 2019 - 38th International Conference on Conceptual Modeling, Nov 2019, Salvador, Brazil. pp.448-456, ⟨10.1007/978-3-030-33223-5_37⟩
Communication dans un congrès hal-02138771v1
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Graphs, Rewriting and Pathway Reconstruction for Rule-Based Models

Vincent Danos , Jérôme Feret , Walter Fontana , Russell Harmer , Jonathan Hayman , et al.
FSTTCS 2012 - IARCS Annual Conference on Foundations of Software Technology and Theoretical Computer Science, Dec 2012, Hyderabad, India. pp.276-288, ⟨10.4230/LIPIcs.FSTTCS.2012.276⟩
Communication dans un congrès hal-00809065v1

Rule-based modelling of cellular signalling

Vincent Danos , Jerome Feret , Walter Fontana , Russell Harmer , Jean Krivine
International Conference on Concurrency Theory (CONCUR'07), Sep 2007, Portugal
Communication dans un congrès hal-00164297v1

Bio-curation for cellular signalling

Russ Harmer , Yves-Stan Le Cornec , Sébastien Légaré , Ievgeniia Oshurko
Computational Methods in Systems Biology, Sep 2017, Darmstadt, Germany. ⟨10.1007/978-3-319-67471-1_1⟩
Communication dans un congrès hal-01617185v1

Internal coarse-graining of molecular systems

Jérôme Feret , Vincent Danos , Jean Krivine , Russ Harmer , Walter Fontana
Proceedings of the National Academy of Sciences of the United States of America, 2009, 106 (16), ⟨10.1073/pnas.0809908106⟩
Article dans une revue inria-00528330v1
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Thermodynamic graph rewriting

Vincent Danos , Russ Harmer , Ricardo Honorato-Zimmer
Concur 2013, 2013, Argentina. pp.380-394
Communication dans un congrès hal-00966094v1
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Models of Tet-On System with Epigenetic Effects

Russ Harmer , Jean Krivine , Élise Laruelle , Cédric Lhoussaine , Guillaume Madelaine , et al.
Computational Methods in Systems Biology 2012 (CMSB 2012, Flashposter), Oct 2012, London, United Kingdom. pp.378
Communication dans un congrès hal-00725553v1
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Modelling Systems Biology Wide and Deep

Sébastien Légaré , Jean Krivine , Russ Harmer , Jérôme Feret
CMSB 2021 - 19th International Conference on Computational Methods in Systems Biology, Sep 2021, Bordeaux, France. CMSB
Poster de conférence hal-03357485v1
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Rule-based modelling and model perturbations

Vincent Danos , Jérôme Feret , Walter Fontana , Russ Harmer , Jean Krivine
Corrado Priami ; Ralph-Johan Back ; Ion Petre. Transactions on Computational Systems Biology XI, Springer, pp.116-137, 2008, Lecture Notes in Computer Science, 978-3-642-04186-0. ⟨10.1007/978-3-642-04186-0_6⟩
Chapitre d'ouvrage istex hal-00350299v1
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Bio-curation for cellular signalling: the KAMI project

Russ Harmer , Yves-Stan Le Cornec , Sébastien Légaré , Eugenia Oshurko
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2019, 16 (5), pp.1562-1573. ⟨10.1109/TCBB.2019.2906164⟩
Article dans une revue hal-02127147v1
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Totality in arena games

Pierre Clairambault , Russ Harmer
Annals of Pure and Applied Logic, 2009, 161 (5), pp.673-689. ⟨10.1016/j.apal.2009.07.016⟩
Article dans une revue hal-00443535v1

KAMIStudio: an environment for biocuration of cell signalling knowledge

Russ Harmer , Eugenia Oshurko
17th International Conference on Computational Methods in Systems Biology, Sep 2019, Trieste, Italy
Communication dans un congrès hal-02138766v1

Executable Knowledge

Russ Harmer
Systems Biology and Formal Methods, Apr 2012, New York, United States
Communication dans un congrès hal-00695295v1
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Cellular strategies and innocent interaction

Russ Harmer
2007
Pré-publication, Document de travail hal-00150353v1
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Constraining rule-based dynamics with types

Vincent Danos , Russ Harmer , Glynn Winskel
Mathematical Structures in Computer Science, 2013, 23 (02), pp.272-289
Article dans une revue hal-01976370v1

Investigation of a biological repair scheme

Vincent Danos , Jérôme Feret , Walter Fontana , Russell Harmer , Jean Krivine
the 9th Workshop on Membrane Computing - WMC9, Paun, G., Jul 2008, Edinburgh, United Kingdom. pp.1-12, ⟨10.1007/978-3-540-95885-7_1⟩
Communication dans un congrès inria-00528319v1
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Knowledge representation and update in hierarchies of graphs

Russ Harmer , Eugenia Oshurko
Journal of Logical and Algebraic Methods in Programming, 2020, 114, pp.100559. ⟨10.1016/j.jlamp.2020.100559⟩
Article dans une revue hal-02869805v1

Rule-based modeling of cellular signaling

Russ Harmer
6th International Workshop on 'Developments in Computational Models' (DCM), Jul 2010, Edinburgh, United Kingdom
Communication dans un congrès hal-00695294v1
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Affine strategies in arena games

Russ Harmer
1st International Workshop on Games for Logic and Programming Languages, 2005, Edinburgh, United Kingdom
Communication dans un congrès hal-00013015v1

Rule-based modelling, symmetries, refinements

Vincent Danos , Jérôme Feret , Walter Fontana , Russell Harmer , Jean Krivine
the 1st International Workshop, Formal Methods in Systems Biology - FMSB 2008, Jasmin Fisher, Jun 2008, Cambridge, United Kingdom. pp.103-122, ⟨10.1007/978-3-540-68413-8_8⟩
Communication dans un congrès istex inria-00528339v1

Knowledge representation and update in hierarchies of graphs

Russ Harmer , Eugenia Oshurko
International Conference on Graph Transformation, Jul 2019, Eindhoven, Netherlands
Communication dans un congrès hal-02127178v1

Special Issue of EPTCS (vol 179) for DCM 2014

Russ Harmer , Ugo Dal Lago
2015
Ouvrages hal-02132689v1
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Concurrency Theorems for Non-linear Rewriting Theories

Russ Harmer , Nicolas Behr , Jean Krivine
ICGT 2021 - 14th International Conference on Graph Transformation, Jun 2021, Bergen, Norway. pp.3-21, ⟨10.1007/978-3-030-78946-6_1⟩
Communication dans un congrès hal-03358036v1
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A living monograph for graph transformation

Nicolas Behr , Russ Harmer
16th International Conference on Graph Transformation (ICGT 2023), Jul 2023, Leicester, United Kingdom. pp.281-291, ⟨10.1007/978-3-031-36709-0_15⟩
Communication dans un congrès hal-04177321v1

Thermodynamic graph-rewriting

Vincent Danos , Russell Harmer , Ricardo Honorato-Zimmer , Hernán Melgratti
Logical Methods in Computer Science, 2015, 11 (2), ⟨10.2168/LMCS-11(2:13)2015⟩
Article dans une revue hal-01974698v1
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Biological signalling and causality

Vincent Danos , Walter Fontana , Russ Harmer , Jean Krivine
2007
Pré-publication, Document de travail hal-00150881v1

Special Issue of APAL (vol 161(5)) for GaLoP 3

Russ Harmer , Dan Ghica
Elsevier, pp.90, 2010
Ouvrages hal-00695282v1