Publications

R. Cui, I.G. Bucur, P. Groot, T. Heskes, A novel Bayesian approach for latent variable modeling from mixed data with missing values, Statistics and Computing, 2019.

R. Cui, P. Groot, T. Heskes, Learning causal structure from mixed data with missing values using Gaussian copula models, Statistics and Computing, 2018.

Markus Peters, Maytal Saar-Tsechansky, Wolfgang Ketter, Sinead Williamson, Perry Groot, Tom Heskes. A Scalable Preference Model for Autonomous Decision-Making, Machine Learning, 107:1039-1068, 2018.

R. Rahmadi, P. Groot, T. Heskes. The stablespec package for causal discovery on cross-sectional and longitudinal data in R, Neurocomputing, 275:2440-2443, 2018.

R. Rahmadi, P. Groot, M. van Rijn, J van den Brand, M. Heins, H. Knoop, T. Heskes, the Alzheimer's Disease Neuroimaging Initiative, the MASTERPLAN Study Group, and the OPTIMISTIC Consortium. Causality on longitudinal data: Stable specification search in constrained structural equation modeling, Statistical Methods in Medical Research, 2018.

R. Rahmadi, P. Groot, M. Heins, H. Knoop, T. Heskes and the OPTIMISTIC Consortium. Causality on Cross-Sectional Data: Stable Specification Search in Constrained Structural Equation Modeling, Applied Soft Computing, 2016. [arXiv]

E. Sokolova, A.M. Oerlemans, N.N. Rommelse, P. Groot, C.A. Hartman, T. Claassen, J.K. Buitelaar, T. Heskes. A causal and mediation analysis of the comorbidity between attention deficit hyperactivity disorder (ADHD) and autism spectrum disorder (ASD), Journal of Autism and Developmental Disorders, 2016.

E. Sokolova, P. Groot, T. Claassen, K.J. van Hulzen, J. Glennon, B. Franke, T. Heskes, J. Buitelaar. Statistical evidence that inattention drive hyperactivity/impulsivity in Attention Deficit Hyperactivity Disorder, Plos One, 2016.

E. Sokolova, D. von Rhein, J. Naaijen, P. Groot, T. Claassen, J. Buitelaar, T. Heskes. Handling hybrid and missing data in constraint-based causal discovery to study the etiology of ADHD, International Journal of Data Science and Analytics, 2016.

E. Sokolova, M. Hoogman, P. Groot, T. Claassen, T. Heskes. Computing Lower and Upper Bounds on the Probability of Causal Statements, Proceedings of the Eighth International Conference on Probabilistic Graphical Models, 2016. [PDF]

R. Cui, P. Groot, and T. Heskes. Copula PC Algorithm for Causal Discovery from Mixed Data, Joint European Conference on Machine Learning and Knowledge Discovery in Databases. Springer International Publishing, 2016. [PDF]

B. van Engelen and the OPTIMISTIC Consortium. Cognitive behaviour therapy plus aerobic exercise training to increase activity in patients with myotonic dystrophy type 1 (DM1) compared to usual care (OPTIMISTIC): study protocol for randomised controlled trial, Trials, 16:224, 2015. [URL]

E. Sokolova, M. Hoogman, P. Groot, T. Claassen, A.A. Vasquez, J.K. Buitelaar, B. Franke, T. Heskes. Causal discovery in an adult ADHD data set suggests indirect link between DAT1 genetic variants and striatal brain activation during reward processing, American Journal of Medical Genetics Part B: Neuropsychiatric Genetics, 2015. [URL] [DOCX]

Elena Sokolova, Perry Groot, Tom Claassen, Daniel von Rhein, Jan Buitelaar, Tom Heskes. Causal Discovery from Medical Data: Dealing with Missing Values and a Mixture of Discrete and Continuous Data, Artificial Intelligence in Medicine, Volume 9105, pp 177-181, 2015. [PDF]

R. Rahmadi, P. Groot, M. Heins, H. Knoop, and T. Heskes. Causality on Longitudinal Data: Stable Specification Search in Constrained Structural Equation Modeling, Proceedigns of the 1st International Workshop on Advanced Analytics and Learning on Temporal Data (AALTD), 2015. [PDF]

Perry Groot, Markus Peters, Tom Heskes, Wolfgang Ketter. Fast Laplace Approximation for Gaussian Processes with a Tensor Product Kernel, BNAIC, 41-48, 2014. [PDF]

Elena Sokolova, Perry Groot, Tom Claassen, Tom Heskes. Causal Discovery from Databases with Discrete and Continuous Variables, In The 7th European Workshop on Probabilistic Graphical Models (PGM), 2014. [PDF] [BNAIC 2014 Abstract]

Ridho Rahmadi, Perry Groot, Tom Heskes. Stable Specification Searches in Structural Equation Modeling Using a Multi-Objective Evolutionary Algorithm, Seminar Nasional Aplikasi Teknologi Informasi (SNATi), 2014. [PDF]

Adriana Birlutiu, Perry Groot, Tom Heskes. Efficiently Learning the Preferences of People, Machine Learning, Volume 90, Issue 1, pp 1-28, January 2013. [PDF] [Preprint PDF]

Perry Groot, Peter Lucas. Gaussian process regression with censored data using Expectation propagation, In The 6th European Workshop on Probabilistic Graphical Models (PGM), 2012. [PDF] [Supplement] [Code]

Perry Groot, Peter Lucas, Paul van den Bosch. Multiple-step Time Series Forecasting with Sparse Gaussian Processes, BNAIC 2011. [PDF]

Perry Groot, Adriana Birlutiu, Tom Heskes. Learning from Multiple Annotators with Gaussian Processes, ICANN, 2011, 159-164. [PDF] [Poster] [Code]

Perry Groot, Tom Heskes, Tjeerd M.H. Dijkstra, James M. Kates. Predicting Preference Judgments of Individual Normal and Hearing-Impaired Listeners With Gaussian Processes, IEEE Transactions on Audio, Sound, and Language Processing, 2010. doi:10.1109/TASL.2010.2064311. [PDF]

Adriana Birlutiu, Perry Groot, Tom Heskes. Multi-task preference learning with an applications to hearing-aid personalization, Neurocomputing, Volume 73, Issues 7-9, Pages 1177-1185, 2010. doi:10.1016/j.neucom.2009.11.025 [PDF]

Perry Groot, Adriana Birlutiu, Tom Heskes. Bayesian Monte Carlo for the Global Optimization of Expensive Functions, 19th European Conference on Artificial Intelligence (ECAI), pages 249-254, 2010. [PDF] [BNAIC 2010 Abstract] [Data]

Adriana Birlutiu, Perry Groot, and Tom Heskes. Multi-Task Preference Learning with Gaussian Processes, Proceedings of the 17th European Symposium on Artificial Neural Networks (ESANN), pages 123-128, 2009. [PDF] [BNAIC 2009 Abstract]

Perry Groot, Arjen Hommersom, Peter Lucas, Robbert Jan Merk, Annette ten Teije, Frank van Harmelen, and Radu Serban. Using Model Checking for Critiquing based on Clinical Guidelines, Artificial Intelligence in Medicine, 46(1):19-35, 2008. [PDF] [doi]

Arjen Hommersom, Perry Groot, Michael Balser, and Peter Lucas. Formal Methods for Verification of Clinical Practice Guidelines, In A ten Teije, S. Miksch, and P.J.F. Lucas, editors, Computer-based Medical Guidelines and Protocols: A Primer and Current Trends, volume 139 of Studies in Health Technology and Informatics, Chapter 4, pages 63-80. IOS Press, 2008. [PDF]

Perry Groot, Arjen Hommersom, and Peter Lucas. Adaptation of Clinical Practice Guidelines, In A ten Teije, S. Miksch, and P.J.F. Lucas, editors, Computer-based Medical Guidelines and Protocols: A Primer and Current Trends, volume 139 of Studies in Health Technology and Informatics, Chapter 7, pages 121-139. IOS Press, 2008. [PDF]

Arjen Hommersom, Perry Groot, Peter Lucas, Mar Marcos, and Begona Martinez-Salvador. A Constraint-based Approach to Medical Guidelines and Protocols, In A ten Teije, S. Miksch, and P.J.F. Lucas, editors, Computer-based Medical Guidelines and Protocols: A Primer and Current Trends, volume 139 of Studies in Health Technology and Informatics, pages 213-222. IOS Press, 2008. [PDF]

Perry Groot, Tom Heskes, Tjeerd M.H. Dijkstra. Nonlinear perception of hearing-impaired people using preference learning with Gaussian Processes, Technical Report ICIS-R08018, Radboud University Nijmegen, 2008. [PDF]

Perry Groot, Christian Gilissen, and Michael Egmont-Petersen. Error Probabilities for Local Extrema in Gene Expression Data, Pattern Recognition Letters,28(15):2133--2142, 2007. [PDF] [doi]

Arjen Hommersom, Perry Groot, Peter Lucas, Michael Balser, and Jonathan Schmitt. Verification of Medical Guidelines using Background Knowledge in Task Networks, IEEE Transactions on Knowledge and Data Engineering, 19(6):832--846, June 2007. [PDF]

Arjen Hommersom, Perry Groot, Peter Lucas, Michael Balser, and Jonathan Schmitt. Combining Task Execution and Background Knowledge for the Verification of Medical Guidelines. Knowledge-Based Systems, 20(2):113-119, 2007. [PDF]

Perry Groot, Ferry Bruijsten, and Martijn Oostdijk. Patient Data Confidentiality Issues of the Dutch Electronic Health Care Record, Proceedings of the 19th Belgian-Dutch Conference on Artificial Intelligence (BNAIC), 151-157, 2007. [PDF]

Perry Groot, Arjen Hommersom, Peter Lucas, Radu Serban, Annette ten Teije, and Frank van Harmelen. The Role of Model Checking in Critiquing based on Clinical Guidelines. In R. Bellazzi, A. Abu-Hanna, and J. Hunter (editors), 11th Conference on Artificial Intelligence in Medicine, number 4595 in LNAI, pages 411--420, Springer-Verlag Berlin Heidelberg, 2007. [PDF] [BNAIC 2007 Extended Abstract]

Perry Groot, Arjen Hommersom, Peter Lucas, Michael Balser, and Jonathan Schmitt. Experiences in Quality Checking Medical Guidelines using Formal Methods, VVSS, 164-178, 2007. [PDF]

Maurice Samulski, Nico Karssemeijer, Peter Lucas, and Perry Groot. Classification of mammographic masses using support vector machines and Bayesian networks. In N. Karssemeijer and M.L. Giger, editors, Proceedings of SPIE Medical Imaging. SPIE Optical Society, 2007. [Abstract] [PDF] [PS]

Arjen Hommersom, Perry Groot, Peter Lucas, Michael Balser, and Jonathan Schmitt. Combining Task Execution and Background Knowledge for the Verification of Medical Guidelines. In M. Bramer, F. Coenen, and A. Tuson, eds, Proceedings of AI-2006, the 26th SGAI International Conference on Innovative Techniques and Applications of Artificial Intelligence, number XXIII in Research and Development in Intelligent Systems, pages 3-16, Springer, 2006. * Best Paper Award * [PDF] [Gzipped Postscript] [Bibtex]

Cristian Gilissen, Perry Groot, Peter Lucas, Joris Veltman, Ad Geurts van Kessel, and Michael Egmont-Petersen Prediction of protein-to-protein interactions. In International Conference on Advances in Microarray Technology (AMT 2006), 2006. [Poster]

Arjen Hommersom, Perry Groot, and Peter Lucas. Checking Guideline Conformance of Medical Protocols using Modular Model Checking. In the 18th Belgium-Netherlands Conference on Artificial Intelligence (BNAIC'06), pages 173--180, 2006. [PDF]

Arjen Hommersom, Perry Groot, Peter Lucas, Mar Marcos, and Begona Martinez-Salvador. A Constraint-based Approach to Medical Guidelines and Protocols. In ECAI 2006 Workshop -- AI techniques in healthcare:evidence based guidelines and protocols, pages 25-30, 2006. [PDF] [Gzipped Postscript]

Arjen Hommersom, Perry Groot, Peter Lucas, Michael Balser, and Jonathan Schmitt. Verification of Medical Guidelines using Task Execution with Background Knowledge. In 4th Prestigous Applications of Intelligent Systems (PAIS 2006), pages 835-836, 2006. [PDF] [Gzipped Postscript] [Poster]

Perry Groot, Annette ten Teije, and Frank van Harmelen. A Quantitative Analysis of the Robustness of Knowledge-Based Systems Through Degradation Studies. In Knowledge and Information Systems (KAIS), volume 7, pages 224--245, Springer-Verlag London Ltd., 2005. [PDF] [GZipped Postscript] [Bibtex] [Abstract] [BNAIC 2003 Extended Abstract]

Holger Wache, Perry Groot, Heiner Stuckenschmidt. Scalable Instance Retrieval for the Semantic Web by Approximation. In M. Dean et al., editor, WISE 2005 Workshops, volume 3807 of LNCS, pages 245--254, Springer-Verlag Berlin Heidelberg, 2005. [PDF] [Bibtex]

Perry Groot, Heiner Stuckenschmidt, and Holger Wache. Approximating Description Logic Classification for Semantic Web Reasoning. In A. Gomez-Perez and J. Euzenat, editors, The Semantic Web: Research and Applications: 2nd European Semantic Web Conference, volume 3532 of Lecture Notes in Computer Science, pages 318-332, Springer-Verlag Berlin Heidelberg, 2005. [PDF]

Perry Groot, Annette ten Teije, and Frank van Harmelen. Towards a Structured Analysis of Approximate Problem Solving: a Case Study in Classification. In D. Dubois, C. Welty, and M. Williams, editors, Principles of Knowledge Representation and Reasoning: Proceedings of the Ninth International Conference (KR 2004), pages 399--406, Whistler, British Columbia, Canada, June 2004, AAAI Press. [PDF] [GZipped Postscript] [Bibtex] [Abstract] [BNAIC 2004 Extended Abstract]

Perry Groot, Frank van Harmelen, and Annette ten Teije. Torture Tests: A Quantitative Analysis for the Robustness of Knowledge-Based Systems. In R. Dieng and O. Corby, editors, Proceedings of the Twelfth International Conference on Knowledge Engineering and Knowledge Management. Methods, Models, and Tools (EKAW 2000), number 1937 in Lecture Notes in Artificial Intelligence, pages 403--418, Juan-les-Pins, France, October 2000. Springer-Verlag. [PDF] [GZipped Postscript] [Html] [Bibtex] [Abstract]

Perry Groot, Annette ten Teije, and Frank van Harmelen. Formally Verifying Dynamic Properties of Knowledge Based Systems. In D. Fensel and R. Studer, editors, Proceedings of the Eleventh European Workshop on Knowledge Acquisition, Modeling, and Management (EKAW 1999), number 1621 in Lecture Notes in Artificial Intelligence, pages 157--172, Dagstuhl Castle, Germany, May 1999. Springer-Verlag. [PDF] [GZipped Postscript] [Bibtex] [Abstract]