Robert Brijder

Eur. J. Comb., 2022

On matrices and K-relations.

[BibT_eX]

[DOI]

Marc Gyssens

Ann. Math. Artif. Intell., 2022

2021

DNAQL: a query language for DNA sticker complexes.

[BibT_eX]

[DOI]

Nat. Comput., 2021

2020

Counterexamples to a conjecture of Las Vergnas.

[BibT_eX]

[DOI]

Eur. J. Comb., 2020

A Characterization of Circle Graphs in Terms of Multimatroid Representations.

[BibT_eX]

[DOI]

Electron. J. Comb., 2020

2019

On the Expressive Power of Query Languages for Matrices.

[BibT_eX]

[DOI]

ACM Trans. Database Syst., 2019

MATLANG: Matrix operations and their expressive power.

[BibT_eX]

[DOI]

SIGMOD Rec., 2019

Computing with chemical reaction networks: a tutorial.

[BibT_eX]

[DOI]

Nat. Comput., 2019

2018

Preface.

[BibT_eX]

[DOI]

Lulu Qian

Nat. Comput., 2018

Democratic, existential, and consensus-based output conventions in stable computation by chemical reaction networks.

[BibT_eX]

[DOI]

David Doty

David Soloveichik

Nat. Comput., 2018

Orienting transversals and transition polynomials of multimatroids.

[BibT_eX]

[DOI]

Adv. Appl. Math., 2018

2017

Sorting by reversals and the theory of 4-regular graphs.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2017

Dominance and deficiency for Petri nets and chemical reaction networks.

[BibT_eX]

[DOI]

Nat. Comput., 2017

Isotropic Matroids III: Connectivity.

[BibT_eX]

[DOI]

Electron. J. Comb., 2017

2016

Minimal output unstable configurations in chemical reaction networks and deciders.

[BibT_eX]

[DOI]

Nat. Comput., 2016

Isotropic Matroids II: Circle Graphs.

[BibT_eX]

[DOI]

Electron. J. Comb., 2016

Isotropic Matroids I: Multimatroids and Neighborhoods.

[BibT_eX]

[DOI]

Electron. J. Comb., 2016

Robustness of Expressivity in Chemical Reaction Networks.

[BibT_eX]

[DOI]

David Doty

David Soloveichik

Proceedings of the DNA Computing and Molecular Programming - 22nd International Conference, 2016

2015

Recombination faults in gene assembly in ciliates modeled using multimatroids.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2015

Dominance and T-Invariants for Petri Nets and Chemical Reaction Networks.

[BibT_eX]

[DOI]

Proceedings of the DNA Computing and Molecular Programming - 21st International Conference, 2015

2014

The Algebra of Gene Assembly in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Discrete and Topological Models in Molecular Biology, 2014

Interlace polynomials for multimatroids and delta-matroids.

[BibT_eX]

[DOI]

Eur. J. Comb., 2014

Output Stability and Semilinear Sets in Chemical Reaction Networks and Deciders.

[BibT_eX]

[DOI]

Proceedings of the DNA Computing and Molecular Programming - 20th International Conference, 2014

Graph Polynomials Motivated by Gene Rearrangements in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Language, Life, Limits - 10th Conference on Computability in Europe, 2014

2013

Nullity and Loop Complementation for Delta-Matroids.

[BibT_eX]

[DOI]

SIAM J. Discret. Math., 2013

Graph-theoretic formalization of hybridization in DNA sticker complexes.

[BibT_eX]

[DOI]

Nat. Comput., 2013

On the inference of non-confluent NLC graph grammars.

[BibT_eX]

[DOI]

Hendrik Blockeel

J. Log. Comput., 2013

The Adjacency Matroid of a Graph.

[BibT_eX]

[DOI]

Electron. J. Comb., 2013

The DNA query language DNAQL.

[BibT_eX]

[DOI]

Proceedings of the Joint 2013 EDBT/ICDT Conferences, 2013

2012

Computational Nature of Gene Assembly in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Handbook of Natural Computing, 2012

Pivots, determinants, and perfect matchings of graphs.

[BibT_eX]

[DOI]

Tero Harju

Theor. Comput. Sci., 2012

A comparison of graph-theoretic DNA hybridization models.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2012

Binary Symmetric Matrix Inversion Through Local Complementation.

[BibT_eX]

[DOI]

Fundam. Informaticae, 2012

A Type System for DNAQL.

[BibT_eX]

[DOI]

Proceedings of the DNA Computing and Molecular Programming - 18th International Conference, 2012

Representing Reaction Systems by Trees.

[BibT_eX]

[DOI]

Andrzej Ehrenfeucht

Proceedings of the Computation, Physics and Beyond, 2012

2011

On aggregation in multiset-based self-assembly of graphs.

[BibT_eX]

[DOI]

Nat. Comput., 2011

A Tour of reaction Systems.

[BibT_eX]

[DOI]

Int. J. Found. Comput. Sci., 2011

The group structure of pivot and loop complementation on graphs and set systems.

[BibT_eX]

[DOI]

Eur. J. Comb., 2011

Characterizing Compressibility of Disjoint Subgraphs with NLC Grammars.

[BibT_eX]

[DOI]

Hendrik Blockeel

Proceedings of the Language and Automata Theory and Applications, 2011

Reaction Systems with Duration.

[BibT_eX]

[DOI]

Andrzej Ehrenfeucht

Proceedings of the Computation, 2011

2010

Extended strings and graphs for simple gene assembly.

[BibT_eX]

[DOI]

Miika Langille

Ion Petre

Theor. Comput. Sci., 2010

Combining overlap and containment for gene assembly in ciliates.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2010

A Note on Causalities in Reaction Systems.

[BibT_eX]

[DOI]

Andrzej Ehrenfeucht

Electron. Commun. Eur. Assoc. Softw. Sci. Technol., 2010

Maximal pivots on graphs with an application to gene assembly.

[BibT_eX]

[DOI]

Discret. Appl. Math., 2010

Pivot and Loop Complementation on Graphs and Set Systems.

[BibT_eX]

[DOI]

Proceedings of the Theory and Applications of Models of Computation, 7th Annual Conference, 2010

2009

Perfectly quilted rectangular snake tilings.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2009

Reduction Graphs from Overlap Graphs for Gene Assembly in Ciliates.

[BibT_eX]

[DOI]

Int. J. Found. Comput. Sci., 2009

Nullity Invariance for Pivot and the Interlace Polynomial

[BibT_eX]

[DOI]

CoRR, 2009

Non-Confluent NLC Graph Grammar Inference by Compressing Disjoint Subgraphs.

[BibT_eX]

[DOI]

Hendrik Blockeel

CoRR, 2009

Reality-and-Desire in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Algorithmic Bioprocesses, 2009

2008

Membrane systems with proteins embedded in membranes.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2008

Strategies of loop recombination in ciliates.

[BibT_eX]

[DOI]

Michael Muskulus

Discret. Appl. Math., 2008

The fibers and range of reduction graphs in ciliates.

[BibT_eX]

[DOI]

Acta Informatica, 2008

Extending the Overlap Graph for Gene Assembly in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Language and Automata Theory and Applications, 2008

2007

Cycles and communicating classes in membrane systems and molecular dynamics.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2007

Multiset-Based Self-Assembly of Graphs.

[BibT_eX]

[DOI]

Fundam. Informaticae, 2007

How Overlap Determines the Macronuclear Genes in Ciliates

[BibT_eX]

[DOI]

CoRR, 2007

A String-Based Model for Simple Gene Assembly.

[BibT_eX]

[DOI]

Miika Langille

Ion Petre

Proceedings of the Fundamentals of Computation Theory, 16th International Symposium, 2007

From Micro to Macro: How the Overlap Graph Determines the Reduction Graph in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Fundamentals of Computation Theory, 16th International Symposium, 2007

Characterizing Reduction Graphs for Gene Assembly in Ciliates.

[BibT_eX]

[DOI]

Proceedings of the Developments in Language Theory, 11th International Conference, 2007

2006

Reducibility of gene patterns in ciliates using the breakpoint graph.

[BibT_eX]

[DOI]

Theor. Comput. Sci., 2006

Communication Membrane Systems with Active Symports.

[BibT_eX]

[DOI]

J. Autom. Lang. Comb., 2006

Complexity of bio-computation: symbolic dynamics in membrane systems.

[BibT_eX]

[DOI]

Michael Muskulus

Int. J. Found. Comput. Sci., 2006

Membrane Systems with Marked Membranes.

[BibT_eX]

[DOI]

Proceedings of the First Workshop on Membrane Computing and Biologically Inspired Process Calculi, 2006

Membrane Systems with External Control.

[BibT_eX]

[DOI]

Proceedings of the Membrane Computing, 7th International Workshop, 2006

Applicability of Loop Recombination in Ciliates Using the Breakpoint Graph.

[BibT_eX]

[DOI]

Michael Muskulus

Proceedings of the Computational Life Sciences II, 2006

2005

The Breakpoint Graph in Ciliates.

[BibT_eX]

[DOI]