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Publications

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2011
J. Rius, Cores, F., Solsona, F., van Hemert, J. I., Koetsier, J., and Notredame, C., “A user-friendly web portal for T-Coffee on supercomputers”, BMC Bioinformatics, vol. 12, 2011.
2010
R. R. Kitchen, Sabine, V. S., Sims, A. H., Macaskill, E. J., Renshaw, L., Thomas, J. S., van Hemert, J. I., Dixon, J. M., and Bartlett, J. M. S., “Correcting for intra-experiment variation in Illumina BeadChip data is necessary to generate robust gene-expression profiles”, BMC Genomics, vol. 11, no. 134, 2010.
2009
A. Barker, Weissman, J., and van Hemert, J. I., “The Circulate Architecture: Avoiding Workflow Bottlenecks Caused By Centralised Orchestration”, Cluster Computing, vol. 12, p. 221--235, 2009.
J. I. van Hemert and la Poutré, J. A., “Exploiting Fruitful Regions in Dynamic Routing using Evolutionary Computation”, in Studies in Computational Intelligence , vol. 161, F. Pereira Babtista and Tavares, J., Eds. Springer, 2009, p. 131--149.
J. I. van Hemert and Koetsier, J., “Giving Computational Science a Friendly Face”, Zero-In, vol. 1, no. 3, p. 12--13, 2009.
S. Gesing, Kohlbacher, O., and van Hemert, J. I., “Portals for Life Sciences—a Brief Introduction”, in Proceedings of the IWPLS09 International Workshop on Portals for Life Sciences, 2009.
J. Koetsier, Turner, A., Richardson, P., and van Hemert, J. I., “Rapid chemistry portals through engaging researchers”, in Fifth IEEE International Conference on e-Science, Oxford, UK, 2009, pp. 284-291.
J. Koetsier and van Hemert, J. I., “Rapid development of computational science portals”, in Proceedings of the IWPLS09 International Workshop on Portals for Life Sciences, Edinburgh, 2009.
J. Koetsier and van Hemert, J. I., “Rapid development of computational science portals”, in Proceedings of the IWPLS09 International Workshop on Portals for Life Sciences, Edinburgh, 2009.
J. D. Armstrong and van Hemert, J. I., “Towards a Virtual Fly Brain”, Philosophical Transactions A, vol. 367, p. 2387--2397, 2009.
J. O’Donoghue and van Hemert, J. I., “Using the DCC Lifecycle Model to Curate a Gene Expression Database: A Case Study”, International Journal of Digital Curation, vol. 4, no. 3, 2009.
2008
I. Juhos and van Hemert, J. I., “Contraction-Based Heuristics to Improve the Efficiency of Algorithms Solving the Graph Colouring Problem”, in Studies in Computational Intelligence, C. Cotta and van Hemert, J. I., Eds. Springer, 2008, p. 167--184.
I. Juhos and van Hemert, J. I., “Contraction-Based Heuristics to Improve the Efficiency of Algorithms Solving the Graph Colouring Problem”, in Studies in Computational Intelligence, C. Cotta and van Hemert, J. I., Eds. Springer, 2008, p. 167--184.
J. I. van Hemert and Baldock, R. A., “Matching Spatial Regions with Combinations of Interacting Gene Expression Patterns”, in Communications in Computer and Information Science, 2008, p. 347--361.
2007
J. I. van Hemert and Baldock, R. A., “Mining spatial gene expression data for association rules”, in Lecture Notes in Bioinformatics, 2007, p. 66--76.
2006
J. I. van Hemert, “Evolving combinatorial problem instances that are difficult to solve”, Evolutionary Computation, vol. 14, p. 433--462, 2006.
I. Juhos and van Hemert, J. I., “Improving Graph Colouring Algorithms and Heuristics Using a Novel Representation”, in Springer Lecture Notes on Computer Science, 2006, p. 123--134.
I. Juhos and van Hemert, J. I., “Increasing the efficiency of graph colouring algorithms with a representation based on vector operations”, Journal of Software, vol. 1, p. 24--33, 2006.
M. Gruber, van Hemert, J. I., and Raidl, G. R., “Neighborhood Searches for the Bounded Diameter Minimum Spanning Tree Problem Embedded in a VNS, EA, and ACO”, in Proceedings of the Genetic and Evolutionary Computation Conference (GECCO 2006), Seattle, USA, 2006, vol. 2, p. 1187--1194.
2005
A. Defaweux, Lenaerts, T., van Hemert, J. I., and Parent, J., “Complexity Transitions in Evolutionary Algorithms: Evaluating the impact of the initial population”, in Proceedings of the Congress on Evolutionary Computation, 2005, p. 196--203.
A. Defaweux, Lenaerts, T., and van Hemert, J. I., “Evolutionary Transitions as a Metaphor for Evolutionary Optimization”, in LNAI 3630, 2005, p. 342--352.
I. Juhos, Tóth, A., and van Hemert, J. I., “Heuristic Colour Assignment Strategies for Merge Models in Graph Colouring”, in Springer Lecture Notes on Computer Science, 2005, p. 132--143.
J. I. van Hemert, “Property analysis of symmetric travelling salesman problem instances acquired through evolution”, in Springer Lecture Notes on Computer Science, 2005, p. 122--131.
A. Defaweux, Lenaerts, T., van Hemert, J. I., and Parent, J., “Transition Models as an incremental approach for problem solving in Evolutionary Algorithms”, in Proceedings of the Genetic and Evolutionary Computation Conference, 2005, p. 599--606.
2004
I. Juhos, Tóth, A., and van Hemert, J. I., “Binary Merge Model Representation of the Graph Colouring Problem”, in Springer Lecture Notes on Computer Science, 2004, p. 124--134.

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