Aalt D. J. van Dijk

Publication Activity (10 Years)

Years Active: 2006-2022
Publications (10 Years): 5

Top Topics

Protein Interaction

Systems Biology

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Frontiers Artif. Intell.

Publications

Aalt D. J. van Dijk, Shin-Han Shiu, Dick de Ridder
Editorial: Artificial Intelligence and Machine Learning Applications in Plant Genomics and Genetics. Frontiers Artif. Intell. 5 (2022)
Janani Durairaj, Elena Melillo, Harro J. Bouwmeester, Jules Beekwilder, Dick de Ridder, Aalt D. J. van Dijk
Integrating structure-based machine learning and co-evolution to investigate specificity in plant sesquiterpene synthases. PLoS Comput. Biol. 17 (3) (2021)
Yan Wang, Miguel Correa Marrero, Marnix H. Medema, Aalt D. J. van Dijk
Coevolution-based prediction of protein-protein interactions in polyketide biosynthetic assembly lines. Bioinform. 36 (19) (2020)
Miguel Correa Marrero, Richard G. H. Immink, Dick de Ridder, Aalt D. J. van Dijk
Improved inference of intermolecular contacts through protein-protein interaction prediction using coevolutionary analysis. Bioinform. 35 (12) (2019)
Aalt D. J. van Dijk, Harri Lähdesmäki, Dick de Ridder, Juho Rousu
Selected proceedings of Machine Learning in Systems Biology: MLSB 2016. BMC Bioinform. 17 (S-16) (2016)
Peter Boyen, Frank Neven, Dries Van Dyck, Felipe L. Valentim, Aalt D. J. van Dijk
Mining Minimal Motif Pair Sets Maximally Covering Interactions in a Protein-Protein Interaction Network. IEEE ACM Trans. Comput. Biol. Bioinform. 10 (1) (2013)
Yiannis Kourmpetis, Aalt D. J. van Dijk, Cajo J. F. ter Braak
Gene Ontology consistent protein function prediction: the FALCON algorithm applied to six eukaryotic genomes. Algorithms Mol. Biol. 8 (2013)
Jose M. Muiño, Marlous Hoogstraat, Roeland C. H. J. van Ham, Aalt D. J. van Dijk
PRI-CAT: a web-tool for the analysis, storage and visualization of plant ChIP-seq experiments. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Janrdanan Sreekumar, Cajo J. F. ter Braak, Roeland C. H. J. van Ham, Aalt D. J. van Dijk
Correlated mutations via regularized multinomial regression. BMC Bioinform. 12 (2011)
Peter Boyen, Dries Van Dyck, Frank Neven, Roeland C. H. J. van Ham, Aalt D. J. van Dijk
SLIDER: A Generic Metaheuristic for the Discovery of Correlated Motifs in Protein-Protein Interaction Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 8 (5) (2011)
Aalt D. J. van Dijk, Giuseppa Morabito, Martijn Fiers, Roeland C. H. J. van Ham, Gerco C. Angenent, Richard G. H. Immink
Sequence Motifs in MADS Transcription Factors Responsible for Specificity and Diversification of Protein-Protein Interaction. PLoS Comput. Biol. 6 (11) (2010)
Simon van Mourik, Aalt D. J. van Dijk, Maarten de Gee, Richard G. H. Immink, Kerstin Kaufmann, Gerco C. Angenent, Roeland C. H. J. van Ham, Jaap Molenaar
Continuous-time modeling of cell fate determination in Arabidopsis flowers. BMC Syst. Biol. 4 (2010)
Peter Boyen, Frank Neven, Dries Van Dyck, Aalt D. J. van Dijk, Roeland C. H. J. van Ham
SLIDER: Mining Correlated Motifs in Protein-Protein Interaction Networks. ICDM (2009)
Aalt D. J. van Dijk, D. Bosch, Cajo J. F. ter Braak, A. R. van der Krol, Roeland C. H. J. van Ham
Predicting sub-Golgi localization of type II membrane proteins. Bioinform. 24 (16) (2008)
Aalt D. J. van Dijk, Cajo J. F. ter Braak, Richard G. H. Immink, Gerco C. Angenent, Roeland C. H. J. van Ham
Predicting and understanding transcription factor interactions based on sequence level determinants of combinatorial control. Bioinform. 24 (1) (2008)
Aalt D. J. van Dijk, Alexandre M. J. J. Bonvin
Solvated docking: introducing water into the modelling of biomolecular complexes. Bioinform. 22 (19) (2006)