Description
Leader of the group Life Sciences and Health: Leen Stougie.
The CWI Life Sciences and Health (LSH) group is a group of computer scientists and mathematicians whose research focus is on the analysis and design of models and algorithms as well as their direct application to important challenges in the LSH domain.
On the application side, our present team of researchers has expertise in, e.g., computational genomics, medical informatics, computational phylogenetics, and biological network analysis. On the methodological side, we come from different backgrounds, e.g., computational intelligence, computational data science, and operations research. Methodologically, we develop new theories, models, algorithms and decision support tools, for problems that arise mostly in collaboration with experimental biologists and medical experts. We actively collaborate in projects with academic hospitals, biological and biochemical research institutes, and industry. Click here for more information about our group structure.
The LSH group participates in the INRIA International team ERABLE.
Seminars: The LSH group organizes a biweekly seminar.
Watch our group video to get a glimpse of our activities.
News
Marie Curie ITN grant awarded to ALPACA network
Recently, CWI and others were awarded an EU Marie Skłodowska-Curie Innovative Training Networks (ITN) consortium grant for ALPACA –'Algorithms for PAngenome Computational Analysis'. The research project involves a total funding of 3.67 million euros.
CWI designs algorithms for the improvement of Genetic Programming
Marco Virgolin of CWI’s Life Sciences & Health group has researched ways to improve the efficiency and effectiveness of Genetic Programming (GP). He defends his thesis ‘Design and Application of Gene-Pool Optimal Mixing Evolutionary Algorithms for Genetic Programming’ on Monday 6 June.
Peter Bosman awarded grant of 1M euros from NWO’s Open Technology Programme
Peter Bosman’s project proposal DAEDALUS (Distributed and Automated Evolutionary Deep Architecture Learning with Unprecedented Scalability) has been granted by NWO TTW in its Open Technology Programme.
€1.5 million European grant for mathematics consortium NETWORKS
The NETWORKS consortium can now continue growing thanks to a €1.5 million grant from the European Union’s Horizon2020 programme.
Members
Associated Members
Publications
-
Pyne, S, Ray, S, Gurewitsch, R., & Aruru, M. (2020). Transition from Social Vulnerability to Resiliency vis-à-vis COVID-19. Statistics and Applications, 18(1), 197–208.
-
Bernardini, G, Loukides, G, Pissis, S, Sweering, M.J.M, Chen, H, Pisanti, N, & Stougie, L. (2020). String Sanitization Under Edit Distance. In Leibniz International Proceedings in Informatics (pp. 7:1–7:14). doi:10.4230/LIPIcs.CPM.2020.
-
Virgolin, M. (2020, June 8). Design and application of gene-pool optimal mixing evolutionary algorithms for genetic programming. SIKS Dissertation Series.
-
Virgolin, M, Wang, Z, Alderliesten, T, & Bosman, P.A.N. (2020). Machine learning for automatic construction of pediatric abdominal phantoms for radiation dose reconstruction. In Medical Imaging 2020: Imaging Informatics for Healthcare, Research, and Applications. doi:10.1117/12.2548969
-
Virgolin, M, Alderliesten, T, & Bosman, P.A.N. (2020). On explaining machine learning models by evolving crucial and compact features. Swarm and Evolutionary Computation, 53. doi:10.1016/j.swevo.2019.100640
-
Ayad, L.A.K, Bernardini, G, Grossi, R, Iliopoulos, C.S, Pisanti, N, Pissis, S, & Rosone, G. (2020). Longest property-preserved common factor: A new string-processing framework. Theoretical Computer Science, 812, 244–251. doi:10.1016/j.tcs.2020.02.012
-
Wang, Z, Virgolin, M, Bosman, P.A.N, Crama, K.F, Balgobind, B.V, Bel, A, & Alderliesten, T. (2020). Automatic generation of three-dimensional dose reconstruction data for two-dimensional radiotherapy plans for historically treated patients. Journal of Medical Imaging, 7(1). doi:10.1117/1.JMI.7.1.015001
-
Janssen, R, Jones, M.E.L, & Murakami, Y. (2020). Combining Networks Using Cherry Picking Sequences. In Lecture Notes in Computer Science/Lecture Notes in Artificial Intelligence (pp. 77–92). doi:10.1007/978-3-030-42266-0_7
-
Baaijens, J.A, van der Roest, B, Köster, J, Stougie, L, & Schönhuth, A. (2019). Full-length de novo viral quasispecies assembly through variation graph construction. Bioinformatics, 35(24), 5086–5094. doi:10.1093/bioinformatics/btz443
-
Baller, A.C. (2019, November 28). Improving Distribution Efficiency in Cash Supply Chains.
Software
VirtualLeaf: a modeling framework for plant tissue morphogenesis
VirtualLeaf is a computer modeling framework for the simulation of plant tissue morphogenesis, i.e., the biological development of an organism's shape
Current projects with external funding
-
Improving Childhood Cancer Care when Parents Cannot be There - Reducing Medical Traumatic Stress in Childhood Cancer Patients by Bonding with a Robot Companion ()
-
Enhancing protein-drug binding prediction
-
ICT based Innovations in the Battle against Cancer – Next - Generation Patient -Tailored Brachytherapy Cancer Treatment Planning
-
Statistical Models for Structural Genetic Variants in the Genome of the Netherlands
-
Algorithms for PAngenome Computational Analysis (ALPACA)
-
Fast, accurate, and insightful brachytherapy treatment planning for cervical cancer through artificial intelligence (Brachytherapy treatment)
-
Evolutionary eXplainable Artificial Medical INtelligence Engine (EXAMINE)
-
Fusible Evolutionary Deep Neural Network Mixture Learning from Distributed Data for Robust Medical Image Analysis (FEDMix)
-
Multi-Objective Deformable Image Registration (MODIR) – An Innovative Synergy of Multi-Objective Optimization, Machine Learning, and Biomechanical Modeling for the Registration of Medical Images with (MODIR)
-
Networks
-
Optimization for and with Machine Learning (OPTIMAL)
-
Pan-genome Graph Algorithms and Data Integration (PANGAIA)
-
Transparent, Reliable and Unbiased Smart Tool for AI (TRUST-AI)
Related partners
-
AMC Medical Research
-
CNRS
-
Elekta Limited
-
European Molecular Biology Laboratory
-
INRIA
-
Nucletron Operations BV
-
Universita di Pisa
-
Xomnia
-
Academisch Medisch Centrum
-
Biomedical Imaging Group Rotterdam
-
Erasmus Universiteit Rotterdam
-
Geneton S.R.O.
-
Heinrich-Heine-Universitaet Dusseldorf
-
Illumina Cambridge
-
Institut Pasteur
-
Leids Universitair Mediach Centrum
-
Technische Universiteit Delft
-
Univerzita Komenskeho V Bratislave
-
Universiteit Leiden
-
Universitaet Bielefeld
-
Universita' Degli Studi di Milano-Bicocca
-
Universiteit van Tilburg