| 2018 | ICDT | On the Expressive Power of Query Languages for Matrices. | Robert Brijder, Floris Geerts, Jan Van den Bussche, Timmy Weerwag |
| 2016 | DNA | Robustness of Expressivity in Chemical Reaction Networks. | Robert Brijder, David Doty, David Soloveichik |
| 2015 | DNA | Dominance and T-Invariants for Petri Nets and Chemical Reaction Networks. | Robert Brijder |
| 2014 | CiE | Graph Polynomials Motivated by Gene Rearrangements in Ciliates. | Robert Brijder, Hendrik Jan Hoogeboom |
| 2014 | DNA | Output Stability and Semilinear Sets in Chemical Reaction Networks and Deciders. | Robert Brijder |
| 2013 | ICDT | The DNA query language DNAQL. | Robert Brijder, Joris J. M. Gillis, Jan Van den Bussche |
| 2012 | DNA | A Type System for DNAQL. | Robert Brijder, Joris J. M. Gillis, Jan Van den Bussche |
| 2011 | DNA | Graph-Theoretic Formalization of Hybridization in DNA Sticker Complexes. | Robert Brijder, Joris J. M. Gillis, Jan Van den Bussche |
| 2011 | LATA | Characterizing Compressibility of Disjoint Subgraphs with NLC Grammars. | Robert Brijder, Hendrik Blockeel |
| 2010 | TAMC | Pivot and Loop Complementation on Graphs and Set Systems. | Robert Brijder, Hendrik Jan Hoogeboom |
| 2008 | LATA | Extending the Overlap Graph for Gene Assembly in Ciliates. | Robert Brijder, Hendrik Jan Hoogeboom |
| 2007 | DLT | Characterizing Reduction Graphs for Gene Assembly in Ciliates. | Robert Brijder, Hendrik Jan Hoogeboom |
| 2007 | FCT | From Micro to Macro: How the Overlap Graph Determines the Reduction Graph in Ciliates. | Robert Brijder, Hendrik Jan Hoogeboom, Grzegorz Rozenberg |
| 2007 | FCT | A String-Based Model for Simple Gene Assembly. | Robert Brijder, Miika Langille, Ion Petre |