Marcel J. T. Reinders

179 papers A* 5A 6B 12C 3Misc 3Journal 106Unranked 41

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	All-atom protein sequence design using discrete diffusion models. J. Cheminformatics Amelia Villegas-Morcillo, Gijs J. Admiraal, Marcel J. T. Reinders, Jana M. Weber
2026	J	`jnl`	Grounding Large Language Models in Reaction Knowledge Graphs for Synthesis Retrieval. CoRR Olga Bunkova, Lorenzo Di Fruscia, Sophia Rupprecht, Artur M. Schweidtmann, Marcel J. T. Reinders, Jana M. Weber
2025	J	`jnl`	A comprehensive experimental comparison between federated and centralized learning. Database J. Biol. Databases Curation Swier Garst, Andre Dekker, Marcel J. T. Reinders
2025	J	`jnl`	Location and amount of joint involvement differentiates rheumatoid arthritis into different clinical subsets. npj Digit. Medicine Tjardo Daniël Maarseveen, Marc P. Maurits, Lavinia Agra Coletto, Simone Perniola, Stefan Böhringer, Nils Steinz, Sytske Anne Bergstra, Dario Bruno, Maria Rita Gigante, Viviana A. Pacucci, Luca Petricca, Bianca Boxma-de Klerk, Herman Kasper Glas, Clara Di Mario, Denise Campobasso, Barbara Tolusso, Josien Veris-van Dieren, Annette H. M. van der Helm-van Mil, Elisa Gremese, Maria Antonietta D'agostino, Marcel J. T. Reinders, Marco Gessi, Thomas W. J. Huizinga, Stefano Alivernini, Erik van den Akker, Rachel Knevel
2025	J	`jnl`	Multi-Cohort Federated Learning Shows Synergy in Mortality Prediction for MRI-Based and Metabolomics-Based Age Scores. J. Heal. Informatics Res. Pedro Mateus, Swier Garst, Jing Yu, Davy Cats, Alexander G. J. Harms, Mahlet A. Birhanu, Marian Beekman, P. Eline Slagboom, Marcel J. T. Reinders, Jeroen van der Grond, Andre Dekker, Jacobus F. A. Jansen, Magdalena Beran, Miranda T. Schram, Pieter Jelle Visser, Justine E. F. Moonen, Mohsen Ghanbari, Gennady Roshchupkin, Dina Vojinovic, Iñigo Bermejo, Hailiang Mei, Esther E. Bron
2024	J	`jnl`	An in-depth comparison of linear and non-linear joint embedding methods for bulk and single-cell multi-omics. Briefings Bioinform. Stavros Makrodimitris, Bram Pronk, Tamim Abdelaal, Marcel J. T. Reinders
2024	—	`conf`	Federated K-Means Clustering. ICPR (2) Swier Garst, Marcel J. T. Reinders
2024	J	`jnl`	Learning solutions of parametric Navier-Stokes with physics-informed neural networks. CoRR Mahdi Naderibeni, Marcel J. T. Reinders, Liang Wu, David M. J. Tax
2024	J	`jnl`	MRI-based and metabolomics-based age scores act synergetically for mortality prediction shown by multi-cohort federated learning. CoRR Pedro Mateus, Swier Garst, Jing Yu, Davy Cats, Alexander G. J. Harms, Mahlet A. Birhanu, Marian Beekman, P. Eline Slagboom, Marcel J. T. Reinders, Jeroen van der Grond, Andre Dekker, Jacobus F. A. Jansen, Magdalena Beran, Miranda T. Schram, Pieter Jelle Visser, Justine E. F. Moonen, Mohsen Ghanbari, Gennady Roshchupkin, Dina Vojinovic, Iñigo Bermejo, Hailiang Mei, Esther E. Bron
2024	A*	`conf`	PATE: Proximity-Aware Time Series Anomaly Evaluation. KDD Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2024	J	`jnl`	PATE: Proximity-Aware Time series anomaly Evaluation. CoRR Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2024	J	`jnl`	Personalized anomaly detection in PPG data using representation learning and biometric identification. Biomed. Signal Process. Control. Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2024	J	`jnl`	Predicting cell population-specific gene expression from genomic sequence. Frontiers Bioinform. Lieke Michielsen, Marcel J. T. Reinders, Ahmed Mahfouz
2024	J	`jnl`	RESTAD: REconstruction and Similarity based Transformer for time series Anomaly Detection. CoRR Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2024	—	`conf`	RESTAD: Reconstruction and Similarity Based Transformer for Time Series Anomaly Detection. MLSP Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2023	J	`jnl`	Causal inference using observational intensive care unit data: a scoping review and recommendations for future practice. npj Digit. Medicine J. M. Smit, Jesse H. Krijthe, W. M. R. Kant, J. A. Labrecque, M. Komorowski, D. A. M. P. J. Gommers, Jasper van Bommel, Marcel J. T. Reinders, Michel E. van Genderen
2023	J	`jnl`	Cell type matching across species using protein embeddings and transfer learning. Bioinform. Kirti Biharie, Lieke Michielsen, Marcel J. T. Reinders, Ahmed Mahfouz
2023	J	`jnl`	Determining epitope specificity of T-cell receptors with transformers. Bioinform. Abdul Rehman Khan, Marcel J. T. Reinders, Indu Khatri
2023	J	`jnl`	Federated K-means Clustering. CoRR Swier Garst, Marcel J. T. Reinders
2023	J	`jnl`	Improving performance of heart rate time series classification by grouping subjects. CoRR Michael Beekhuizen, Arman Naseri, David M. J. Tax, Ivo van der Bilt, Marcel J. T. Reinders
2023	B	`conf`	Percolate: An Exponential Family JIVE Model to Design DNA-Based Predictors of Drug Response. RECOMB Soufiane Mourragui, Marco Loog, Mirrelijn M. van Nee, Mark A. van de Wiel, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2023	J	`jnl`	Personalized Anomaly Detection in PPG Data using Representation Learning and Biometric Identification. CoRR Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2023	—	`conf`	Self-Supervised PPG Representation Learning Shows High Inter-Subject Variability. ICMLT Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2022	J	`jnl`	A framework for employing longitudinally collected multicenter electronic health records to stratify heterogeneous patient populations on disease history. J. Am. Medical Informatics Assoc. Marc P. Maurits, Ilya Korsunsky, Soumya Raychaudhuri, Shawn N. Murphy, Jordan W. Smoller, Scott T. Weiss, Thomas W. J. Huizinga, Marcel J. T. Reinders, Elizabeth W. Karlson, Erik van den Akker, Rachel Knevel
2022	J	`jnl`	MiMIR: R-shiny application to infer risk factors and endpoints from Nightingale Health's 1H-NMR metabolomics data. Bioinform. Daniele Bizzarri, Marcel J. T. Reinders, Marian Beekman, P. Eline Slagboom, Erik van den Akker
2022	J	`jnl`	Self-Supervised PPG Representation Learning Shows High Inter-Subject Variability. CoRR Ramin Ghorbani, Marcel J. T. Reinders, David M. J. Tax
2021	J	`jnl`	Unsupervised protein embeddings outperform hand-crafted sequence and structure features at predicting molecular function. Bioinform. Amelia Villegas-Morcillo, Stavros Makrodimitris, Roeland C. H. J. van Ham, Angel M. Gomez, Victoria E. Sánchez, Marcel J. T. Reinders
2021	J	`jnl`	snpXplorer: a web application to explore human SNP-associations and annotate SNP-sets. Nucleic Acids Res. Niccolo Tesi, Sven van der Lee, Marc Hulsman, Henne Holstege, Marcel J. T. Reinders
2020	J	`jnl`	ImSpectR: R package to quantify immune repertoire diversity in spectratype and repertoire sequencing data. Bioinform. Martijn Cordes, Karin Pike-Overzet, Marja van Eggermond, Sandra Vloemans, Miranda R. Baert, Laura Garcia-Perez, Frank J. T. Staal, Marcel J. T. Reinders, Erik van den Akker
2020	J	`jnl`	Metric learning on expression data for gene function prediction. Bioinform. Stavros Makrodimitris, Marcel J. T. Reinders, Roeland C. H. J. van Ham
2020	—	`conf`	PREDICT: Efficient Private Disease Susceptibility Testing in Direct-to-Consumer Model. CODASPY Chibuike Ugwuoke, Zekeriya Erkin, Marcel J. T. Reinders, Reginald L. Lagendijk
2020	J	`jnl`	SCHNEL: scalable clustering of high dimensional single-cell data. Bioinform. Tamim Abdelaal, Paul de Raadt, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Mahfouz
2019	J	`jnl`	12 Grand Challenges in Single-Cell Data Science. PeerJ Prepr. David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Niko Beerenwinkel, Kieran R. Campbell, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth
2019	J	`jnl`	Bioinformatics in the Netherlands: the value of a nationwide community. Briefings Bioinform. Celia W. G. van Gelder, Rob W. W. Hooft, Merlijn N. van Rijswijk, Linda van den Berg, Ruben G. Kok, Marcel J. T. Reinders, Barend Mons, Jaap Heringa
2019	J	`jnl`	CyTOFmerge: integrating mass cytometry data across multiple panels. Bioinform. Tamim Abdelaal, Thomas Höllt, Vincent van Unen, Boudewijn P. F. Lelieveldt, Frits Koning, Marcel J. T. Reinders, Ahmed Mahfouz
2019	J	`jnl`	Improving protein function prediction using protein sequence and GO-term similarities. Bioinform. Stavros Makrodimitris, Roeland C. H. J. van Ham, Marcel J. T. Reinders
2019	J	`jnl`	PRECISE: a domain adaptation approach to transfer predictors of drug response from pre-clinical models to tumors. Bioinform. Soufiane Mourragui, Marco Loog, Mark A. van de Wiel, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2018	J	`jnl`	A structural equation model for imaging genetics using spatial transcriptomics. Brain Informatics Sjoerd M. H. Huisman, Ahmed Mahfouz, Nematollah Kayhan Batmanghelich, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders
2018	J	`jnl`	Bioinformatics in the Netherlands: the value of a nationwide community. Briefings Bioinform. Celia W. G. van Gelder, Rob W. W. Hooft, Merlijn N. van Rijswijk, Linda van den Berg, Ruben G. Kok, Marcel J. T. Reinders, Barend Mons, Jaap Heringa
2017	J	`jnl`	Continuous infusion of manganese improves contrast and reduces side effects in manganese-enhanced magnetic resonance imaging studies. NeuroImage Dana S. Poole, Nathalie Doorenweerd, Jaap J. Plomp, Ahmed Mahfouz, Marcel J. T. Reinders, Louise van der Weerd
2016	J	`jnl`	ECCB 2016: The 15th European Conference on Computational Biology. Bioinform. Jaap Heringa, Marcel J. T. Reinders, Sanne Abeln, Jeroen de Ridder
2015	J	`jnl`	An integrated approach of gene expression and DNA-methylation profiles of WNT signaling genes uncovers novel prognostic markers in Acute Myeloid Leukemia. BMC Bioinform. Erdogan Taskesen, Frank J. T. Staal, Marcel J. T. Reinders
2015	J	`jnl`	Hi-C Chromatin Interaction Networks Predict Co-expression in the Mouse Cortex. PLoS Comput. Biol. Sepideh Babaei, Ahmed Mahfouz, Marc Hulsman, Boudewijn P. F. Lelieveldt, Jeroen de Ridder, Marcel J. T. Reinders
2015	J	`jnl`	Integration of gene expression and DNA-methylation profiles improves molecular subtype classification in acute myeloid leukemia. BMC Bioinform. Erdogan Taskesen, Sepideh Babaei, Marcel J. T. Reinders, Jeroen de Ridder
2015	J	`jnl`	Proteny: discovering and visualizing statistically significant syntenic clusters at the proteome level. Bioinform. Thies Gehrmann, Marcel J. T. Reinders
2015	J	`jnl`	Unbiased Quantitative Models of Protein Translation Derived from Ribosome Profiling Data. PLoS Comput. Biol. Alexey A. Gritsenko, Marc Hulsman, Marcel J. T. Reinders, Dick de Ridder
2014	B	`conf`	Genomic connectivity networks based on the BrainSpan atlas of the developing human brain. Image Processing Ahmed Mahfouz, Mark N. Ziats, Owen M. Rennert, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders
2014	J	`jnl`	SPiCE: a web-based tool for sequence-based protein classification and exploration. BMC Bioinform. Bastiaan A. van den Berg, Marcel J. T. Reinders, Johannes A. Roubos, Dick de Ridder
2014	B	`conf`	The Effect of Aggregating Subtype Performances Depends Strongly on the Performance Measure Used. ICPR David M. J. Tax, Herman M. J. Sontrop, Marcel J. T. Reinders, Perry D. Moerland
2013	—	`conf`	Conditional Random Fields for Protein Function Prediction. PRIB Thies Gehrmann, Marco Loog, Marcel J. T. Reinders, Dick de Ridder
2013	J	`jnl`	Detecting recurrent gene mutation in interaction network context using multi-scale graph diffusion. BMC Bioinform. Sepideh Babaei, Marc Hulsman, Marcel J. T. Reinders, Jeroen de Ridder
2013	J	`jnl`	Efficient calculation of compound similarity based on maximum common subgraphs and its application to prediction of gene transcript levels. Int. J. Bioinform. Res. Appl. Rogier J. P. van Berlo, Wynand Winterbach, Marco J. L. de Groot, Andreas Bender, Peter J. T. Verheijen, Marcel J. T. Reinders, Dick de Ridder
2013	J	`jnl`	Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold. Bioinform. Jurgen F. Nijkamp, Mihai Pop, Marcel J. T. Reinders, Dick de Ridder
2013	—	`conf`	Ibidas: Querying Flexible Data Structures to Explore Heterogeneous Bioinformatics Data. DILS Marc Hulsman, Jan Bot, Arjen P. de Vries, Marcel J. T. Reinders
2013	—	`conf`	Local Topological Signatures for Network-Based Prediction of Biological Function. PRIB Wynand Winterbach, Piet Van Mieghem, Marcel J. T. Reinders, Huijuan Wang, Dick de Ridder
2013	—	`conf`	Mutational Genomics for Cancer Pathway Discovery. PRIB Jeroen de Ridder, Jaap Kool, Anthony Uren, Jan Bot, Johann de Jong, Alistair G. Rust, Anton Berns, Maarten van Lohuizen, David J. Adams, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2013	J	`jnl`	Pattern recognition in bioinformatics. Briefings Bioinform. Dick de Ridder, Jeroen de Ridder, Marcel J. T. Reinders
2013	J	`jnl`	Topology of molecular interaction networks. BMC Syst. Biol. Wynand Winterbach, Piet Van Mieghem, Marcel J. T. Reinders, Huijuan Wang, Dick de Ridder
2013	—	`conf`	Using Predictive Models to Engineer Biology: A Case Study in Codon Optimization. PRIB Alexey A. Gritsenko, Marcel J. T. Reinders, Dick de Ridder
2012	—	`conf`	Enabling large genomic data transfers using nation-wide and international dynamic lightpaths. eScience Jan Bot, Migiel de Vos, Sander Boele, Marcel J. T. Reinders, Joost N. Kok
2012	J	`jnl`	GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies. Bioinform. Alexey A. Gritsenko, Jurgen F. Nijkamp, Marcel J. T. Reinders, Dick de Ridder
2011	J	`jnl`	CytoscapeRPC: a plugin to create, modify and query Cytoscape networks from scripting languages. Bioinform. Jan Bot, Marcel J. T. Reinders
2011	J	`jnl`	Human-inspired search for redundancy in automatic sign language recognition. ACM Trans. Appl. Percept. Gineke A. ten Holt, Andrea J. van Doorn, Marcel J. T. Reinders, Emile A. Hendriks, Huib de Ridder
2011	—	`conf`	Integrating Protein Family Sequence Similarities with Gene Expression to Find Signature Gene Networks in Breast Cancer Metastasis. PRIB Sepideh Babaei, Erik van den Akker, Jeroen de Ridder, Marcel J. T. Reinders
2011	J	`jnl`	Integrating Protein-Protein Interaction Networks with Gene-Gene Co-Expression Networks improves Gene Signatures for Classifying Breast Cancer Metastasis. J. Integr. Bioinform. Erik van den Akker, Bas Verbruggen, Bas T. Heijmans, Marian Beekman, Joost N. Kok, Pieternella E. Slagboom, Marcel J. T. Reinders
2011	J	`jnl`	Metabolic network destruction: Relating topology to robustness. Nano Commun. Networks Wynand Winterbach, Huijuan Wang, Marcel J. T. Reinders, Piet Van Mieghem, Dick de Ridder
2011	—	`ed.`	Pattern Recognition in Bioinformatics - 6th IAPR International Conference, PRIB 2011, Delft, The Netherlands, November 2-4, 2011. Proceedings PRIB Marco Loog, Lodewyk F. A. Wessels, Marcel J. T. Reinders, Dick de Ridder
2011	J	`jnl`	Personalised Travel Recommendation based on Location Co-occurrence CoRR Maarten Clements, Pavel Serdyukov, Arjen P. de Vries, Marcel J. T. Reinders
2011	J	`jnl`	Predicting Metabolic Fluxes Using Gene Expression Differences As Constraints. IEEE ACM Trans. Comput. Biol. Bioinform. Rogier J. P. van Berlo, Dick de Ridder, Jean-Marc Daran, Pascale A. S. Daran-Lapujade, Bas Teusink, Marcel J. T. Reinders
2010	J	`jnl`	Delineation of amplification, hybridization and location effects in microarray data yields better-quality normalization. BMC Bioinform. Marc Hulsman, Anouk Mentink, Eugene P. van Someren, Koen J. Dechering, Jan de Boer, Marcel J. T. Reinders
2010	A	`conf`	Finding Wormholes with Flickr Geotags. ECIR Maarten Clements, Pavel Serdyukov, Arjen P. de Vries, Marcel J. T. Reinders
2010	J	`jnl`	HAT: Hypergeometric Analysis of Tiling-arrays with application to promoter-GeneChip data. BMC Bioinform. Erdogan Taskesen, Renee Beekman, Jeroen de Ridder, Bas J. Wouters, Justine K. Peeters, Ivo P. Touw, Marcel J. T. Reinders, Ruud Delwel
2010	J	`jnl`	Identification of Networks of Co-Occurring, Tumor-Related DNA Copy Number Changes Using a Genome-Wide Scoring Approach. PLoS Comput. Biol. Christiaan Klijn, Jan Bot, David J. Adams, Marcel J. T. Reinders, Lodewyk F. A. Wessels, Jos Jonkers
2010	J	`jnl`	Inferring combinatorial association logic networks in multimodal genome-wide screens. Bioinform. Jeroen de Ridder, Alice Gerrits, Jan Bot, Gerald de Haan, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2010	J	`jnl`	Integrating genome assemblies with MAIA. Bioinform. Jurgen F. Nijkamp, Wynand Winterbach, Marcel van den Broek, Jean-Marc Daran, Marcel J. T. Reinders, Dick de Ridder
2010	J	`jnl`	Personalization of tagging systems. Inf. Process. Manag. Jun Wang, Maarten Clements, Jie Yang, Arjen P. de Vries, Marcel J. T. Reinders
2010	—	`conf`	Sequence-Based Prediction of Protein Secretion Success in PRIB Bastiaan A. van den Berg, Jurgen F. Nijkamp, Marcel J. T. Reinders, Liang Wu, Herman J. Pel, Johannes A. Roubos, Dick de Ridder
2010	—	`conf`	Subtype specific breast cancer event prediction. GENSiPS Herman M. J. Sontrop, Wim F. J. Verhaegh, René van den Ham, Marcel J. T. Reinders, Perry D. Moerland
2010	J	`jnl`	The influence of personalization on tag query length in social media search. Inf. Process. Manag. Maarten Clements, Arjen P. de Vries, Marcel J. T. Reinders
2010	J	`jnl`	The task-dependent effect of tags and ratings on social media access. ACM Trans. Inf. Syst. Maarten Clements, Arjen P. de Vries, Marcel J. T. Reinders
2010	A*	`conf`	Using flickr geotags to predict user travel behaviour. SIGIR Maarten Clements, Pavel Serdyukov, Arjen P. de Vries, Marcel J. T. Reinders
2009	—	`conf`	2D/3D Registration of Micro-CT Data to Multi-View Photographs Based on a 3D Distance Map. ISBI Martin Wildeman, Martin Baiker, Johan H. C. Reiber, Clemens W. G. M. Löwik, Marcel J. T. Reinders, Boudewijn P. F. Lelieveldt
2009	J	`jnl`	A comprehensive sensitivity analysis of microarray breast cancer classification under feature variability. BMC Bioinform. Herman M. J. Sontrop, Perry D. Moerland, René van den Ham, Marcel J. T. Reinders, Wim F. J. Verhaegh
2009	—	`conf`	A sensitivity analysis of microarray feature selection and classification under measurement noise. GENSiPS Herman M. J. Sontrop, René van den Ham, Perry D. Moerland, Marcel J. T. Reinders, Wim F. J. Verhaegh
2009	J	`jnl`	Analysis of mass spectrometry data using sub-spectra. BMC Bioinform. Wouter Meuleman, Judith Y. M. N. Engwegen, Marie-Christine W. Gast, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2009	J	`jnl`	Evolutionary Optimization of Kernel Weights Improves Protein Complex Comembership Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. Marc Hulsman, Marcel J. T. Reinders, Dick de Ridder
2009	C	`conf`	Exploiting Positive and Negative Graded Relevance Assessments for Content Recommendation. WAW Maarten Clements, Arjen P. de Vries, Marcel J. T. Reinders
2009	J	`jnl`	Fewer permutations, more accurate Bioinform. Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders, Ilya Shmulevich
2009	—	`conf`	Influence of Handshape Information on Automatic Sign Language Recognition. Gesture Workshop Gineke A. ten Holt, Marcel J. T. Reinders, Emile A. Hendriks, Huib de Ridder, Andrea J. van Doorn
2009	J	`jnl`	Knowledge driven decomposition of tumor expression profiles. BMC Bioinform. Martin H. van Vliet, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2009	J	`jnl`	Metabolite and reaction inference based on enzyme specificities. Bioinform. Marco J. L. de Groot, Rogier J. P. van Berlo, Wouter A. van Winden, Peter J. T. Verheijen, Marcel J. T. Reinders, Dick de Ridder
2009	—	`ch.`	Personalization on a Peer-to-Peer Television System. Handbook of Multimedia for Digital Entertainment and Arts Jun Wang, Johan Pouwelse, Jenneke Fokker, Arjen P. de Vries, Marcel J. T. Reinders
2009	—	`conf`	Sign language perception research for improving automatic sign language recognition. Human Vision and Electronic Imaging Gineke A. ten Holt, Jeroen Arendsen, Huib de Ridder, Andrea J. Koenderink-van Doorn, Marcel J. T. Reinders, Emile A. Hendriks
2009	J	`jnl`	Stability from Structure: Metabolic Networks Are Unlike Other Biological Networks. EURASIP J. Bioinform. Syst. Biol. Peter van Nes, Domenico Bellomo, Marcel J. T. Reinders, Dick de Ridder
2008	B	`conf`	A learning environment for sign language. FG Jeroen Lichtenauer, Gineke A. ten Holt, Emile A. Hendriks, Marcel J. T. Reinders, Abbie Vanhoutte, Irene Kamp, Jeroen Arendsen, Ans J. van Doorn, Huib de Ridder, Elmar Wenners, Mariëlle Elzenaar, Gerard Spaai, Connie Fortgens, Marjan Bruins
2008	A	`conf`	Combinatorial influence of environmental parameters on transcription factor activity. ISMB Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2008	J	`jnl`	Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data. BMC Bioinform. Wouter Meuleman, Judith Y. M. N. Engwegen, Marie-Christine W. Gast, Jos H. Beijnen, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2008	J	`jnl`	Creating gene set activity profiles with time-series expression data. Int. J. Bioinform. Res. Appl. Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2008	A*	`conf`	Detecting synonyms in social tagging systems to improve content retrieval. SIGIR Maarten Clements, Arjen P. de Vries, Marcel J. T. Reinders
2008	J	`jnl`	Erratum to "Classification in the presence of class noise using a probabilistic kernel fisher method": [Pattern Recognition 40 (12) 3349-3357]. Pattern Recognit. Yunlei Li, Lodewyk F. A. Wessels, Dick de Ridder, Marcel J. T. Reinders
2008	J	`jnl`	Integration of prior knowledge of measurement noise in kernel density classification. Pattern Recognit. Yunlei Li, Dick de Ridder, Robert P. W. Duin, Marcel J. T. Reinders
2008	B	`conf`	Learning to recognize a sign from a single example. FG Jeroen Lichtenauer, Emile A. Hendriks, Marcel J. T. Reinders
2008	B	`conf`	Metabolic Pathway Alignment (M-Pal) Reveals Diversity and Alternatives in Conserved Networks. APBC Yunlei Li, Dick de Ridder, Marco J. L. de Groot, Marcel J. T. Reinders
2008	J	`jnl`	Metabolic pathway alignment between species using a comprehensive and flexible similarity measure. BMC Syst. Biol. Yunlei Li, Dick de Ridder, Marco J. L. de Groot, Marcel J. T. Reinders
2008	J	`jnl`	Personalization on a peer-to-peer television system. Multim. Tools Appl. Jun Wang, Johan A. Pouwelse, Jenneke Fokker, Arjen P. de Vries, Marcel J. T. Reinders
2008	J	`jnl`	Probabilistic relevance ranking for collaborative filtering. Inf. Retr. Jun Wang, Stephen Robertson, Arjen P. de Vries, Marcel J. T. Reinders
2008	J	`jnl`	Sign Language Recognition by Combining Statistical DTW and Independent Classification. IEEE Trans. Pattern Anal. Mach. Intell. Jeroen Lichtenauer, Emile A. Hendriks, Marcel J. T. Reinders
2008	—	`conf`	Stability cannot be derived from local structure in biochemical networks. BIONETICS Domenico Bellomo, Peter van Nes, Marcel J. T. Reinders, Dick de Ridder
2008	J	`jnl`	TRIBLER: a social-based peer-to-peer system. Concurr. Comput. Pract. Exp. Johan A. Pouwelse, Pawel Garbacki, Jun Wang, Arno Bakker, Jie Yang, Alexandru Iosup, Dick H. J. Epema, Marcel J. T. Reinders, Maarten van Steen, Henk J. Sips
2008	J	`jnl`	Unified relevance models for rating prediction in collaborative filtering. ACM Trans. Inf. Syst. Jun Wang, Arjen P. de Vries, Marcel J. T. Reinders
2008	—	`ch.`	Wi-Fi Walkman. Encyclopedia of Wireless and Mobile Communications Arjen P. de Vries, Marcel J. T. Reinders, Jun Wang
2007	—	`conf`	A self-calibrating chrominance model applied to skin color detection. VISAPP (1) Jeroen Lichtenauer, Marcel J. T. Reinders, Emile A. Hendriks
2007	J	`jnl`	Classification in the presence of class noise using a probabilistic Kernel Fisher method. Pattern Recognit. Yunlei Li, Lodewyk F. A. Wessels, Dick de Ridder, Marcel J. T. Reinders
2007	—	`conf`	Co-occurrence analysis of insertional mutagenesis data reveals cooperating oncogenes. ISMB/ECCB (Supplement of Bioinformatics) Jeroen de Ridder, Jaap Kool, Anthony Uren, Jan Bot, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2007	J	`jnl`	Integration of Known Transcription Factor Binding Site Information and Gene Expression Data to Advance from Co-Expression to Co-Regulation. Genom. Proteom. Bioinform. Maarten Clements, Eugene P. van Someren, Theo A. Knijnenburg, Marcel J. T. Reinders
2007	—	`conf`	Person-Independent 3D Sign Language Recognition. Gesture Workshop Jeroen Lichtenauer, Gineke A. ten Holt, Marcel J. T. Reinders, Emile A. Hendriks
2007	J	`jnl`	Protein Complex Prediction Using an Integrative Bioinformatics Approach. J. Bioinform. Comput. Biol. Rogier J. P. van Berlo, Lodewyk F. A. Wessels, Dick de Ridder, Marcel J. T. Reinders
2007	J	`jnl`	SIRAC: Supervised Identification of Regions of Aberration in aCGH datasets. BMC Bioinform. Carmen Lai, Hugo M. Horlings, Marc J. van de Vijver, Eric H. van Beers, Petra M. Nederlof, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2007	B	`conf`	Sign language detection using 3D visual cues. AVSS Jeroen Lichtenauer, Gineke A. ten Holt, Emile A. Hendriks, Marcel J. T. Reinders
2006	A	`conf`	A User-Item Relevance Model for Log-Based Collaborative Filtering. ECIR Jun Wang, Arjen P. de Vries, Marcel J. T. Reinders
2006	J	`jnl`	A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets. BMC Bioinform. Carmen Lai, Marcel J. T. Reinders, Laura J. van't Veer, Lodewyk F. A. Wessels
2006	J	`jnl`	Artifacts of Markov blanket filtering based on discretized features in small sample size applications. Pattern Recognit. Lett. Theo A. Knijnenburg, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2006	—	`conf`	Condition Transition Analysis Reveals TF Activity Related to Nutrient-Limitation-Specific Effects of Oxygen Presence in Yeast. CMSB Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2006	J	`jnl`	Detecting Statistically Significant Common Insertion Sites in Retroviral Insertional Mutagenesis Screens. PLoS Comput. Biol. Jeroen de Ridder, Anthony Uren, Jaap Kool, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2006	Misc	`conf`	Distributed collaborative filtering for peer-to-peer file sharing systems. SAC Jun Wang, Johan A. Pouwelse, Reginald L. Lagendijk, Marcel J. T. Reinders
2006	J	`jnl`	Least absolute regression network analysis of the murine osteoblast differentiation network. Bioinform. Eugene P. van Someren, B. L. T. Vaes, W. T. Steegenga, Anneke M. Sijbers, Koen J. Dechering, Marcel J. T. Reinders
2006	J	`jnl`	Maximum significance clustering of oligonucleotide microarrays. Bioinform. Dick de Ridder, Frank J. T. Staal, Jacques J. M. van Dongen, Marcel J. T. Reinders
2006	J	`jnl`	Random subspace method for multivariate feature selection. Pattern Recognit. Lett. Carmen Lai, Marcel J. T. Reinders, Lodewyk F. A. Wessels
2006	J	`jnl`	The effect of oligonucleotide microarray data pre-processing on the analysis of patient-cohort studies. BMC Bioinform. Roel G. W. Verhaak, Frank J. T. Staal, Peter J. M. Valk, Bob Löwenberg, Marcel J. T. Reinders, Dick de Ridder
2006	—	`conf`	Tribler: A Social-Based Peer-to-Peer System. IPTPS Johan A. Pouwelse, Pawel Garbacki, Jun Wang, Arno Bakker, Jie Yang, Alexandru Iosup, Dick H. J. Epema, Marcel J. T. Reinders, Maarten van Steen, Henk J. Sips
2006	A*	`conf`	Unifying user-based and item-based collaborative filtering approaches by similarity fusion. SIGIR Jun Wang, Arjen P. de Vries, Marcel J. T. Reinders
2005	J	`jnl`	A protocol for building and evaluating predictors of disease state based on microarray data. Bioinform. Lodewyk F. A. Wessels, Marcel J. T. Reinders, Augustinus A. M. Hart, Cor J. Veenman, Hongyue Dai, Yudong D. He, Laura J. van't Veer
2005	J	`jnl`	Constrained Texture Restoration. EURASIP J. Adv. Signal Process. Andrei Rares, Marcel J. T. Reinders, Jan Biemond
2005	J	`jnl`	Edge-Based Image Restoration. IEEE Trans. Image Process. Andrei Rares, Marcel J. T. Reinders, Jan Biemond
2005	—	`conf`	Identifying Orthologs: Cycle Splitting on the Breakpoint Graph. CSB Workshops Rogier J. P. van Berlo, Lodewyk F. A. Wessels, S. D. C. Martes, Marcel J. T. Reinders
2005	—	`conf`	Isophote Properties as Features for Object Detection. CVPR (2) Jeroen Lichtenauer, Emile A. Hendriks, Marcel J. T. Reinders
2005	—	`conf`	Maximum signi.cance clustering of oligonucleotide microarrays. CSB Workshops Dick de Ridder, Marcel J. T. Reinders, Frank J. T. Staal, Jacques J. M. van Dongen
2005	—	`conf`	Multivariate gene selection: Does it help. CSB Workshops Carmen Lai, Marcel J. T. Reinders
2005	—	`conf`	Predicting gene function by combining expression and interaction data. CSB Workshops Rogier J. P. van Berlo, Lodewyk F. A. Wessels, S. D. C. Martes, Marcel J. T. Reinders
2005	—	`conf`	Relating transcription factors, modules of genes and cultivation conditions in Saccharomyces cerevisiae. CSB Workshops Theo A. Knijnenburg, Marcel J. T. Reinders, Jean-Marc Daran, Pascale A. S. Daran-Lapujade, Lodewyk F. A. Wessels
2005	A*	`conf`	Self-organizing distributed collaborative filtering. SIGIR Jun Wang, Marcel J. T. Reinders, Reginald L. Lagendijk, Johan A. Pouwelse
2005	J	`jnl`	The Nearest Subclass Classifier: A Compromise between the Nearest Mean and Nearest Neighbor Classifier. IEEE Trans. Pattern Anal. Mach. Intell. Cor J. Veenman, Marcel J. T. Reinders
2005	—	`conf`	Unravelling the murine osteoblast differentiation pathway by network structure analysis using time-series microarray data. CSB Workshops Eugene P. van Someren, B. L. T. Vaes, W. T. Steegenga, Anneke M. Sijbers, Koen J. Dechering, Marcel J. T. Reinders
2005	—	`conf`	Which normalization method is best? A platform-independent biologically inspired quantitative comparison of normalization methods. CSB Workshops Eugene P. van Someren, Marcel J. T. Reinders
2004	—	`conf`	Influence of The Observation Likelihood Function on Particle Filtering Performance in Tracking Applications. FGR Jeroen Lichtenauer, Marcel J. T. Reinders, Emile A. Hendriks
2004	—	`conf`	Local Fisher Embedding. ICPR (2) Dick de Ridder, Marco Loog, Marcel J. T. Reinders
2004	A	`conf`	Video content representation on tiny devices. ICME Jun Wang, Marcel J. T. Reinders, Reginald L. Lagendijk, Jasper Lindenberg, Mohan S. Kankanhalli
2003	J	`jnl`	A cellular coevolutionary algorithm for image segmentation. IEEE Trans. Image Process. Cor J. Veenman, Marcel J. T. Reinders, Eric Backer
2003	J	`jnl`	Establishing motion correspondence using extended temporal scope. Artif. Intell. Cor J. Veenman, Marcel J. T. Reinders, Eric Backer
2003	—	`conf`	Experiential sampling for monitoring. ETP@MM Wei Qi Yan, Mohan S. Kankanhalli, Jun Wang, Marcel J. T. Reinders
2003	J	`jnl`	Motion tracking as a constrained optimization problem. Pattern Recognit. Cor J. Veenman, Marcel J. T. Reinders, Eric Backer
2003	J	`jnl`	Multi-criterion optimization for genetic network modeling. Signal Process. Eugene P. van Someren, Lodewyk F. A. Wessels, Eric Backer, Marcel J. T. Reinders
2003	J	`jnl`	Studying the Conditions for Learning Dynamic Bayesian Networks to Discover Genetic Regulatory Networks. Simul. Rogier J. P. van Berlo, Eugene P. van Someren, Marcel J. T. Reinders
2002	J	`jnl`	A Maximum Variance Cluster Algorithm. IEEE Trans. Pattern Anal. Mach. Intell. Cor J. Veenman, Marcel J. T. Reinders, Eric Backer
2002	—	`conf`	A spatiotemporal image sequence restoration algorithm. ICIP (2) Andrei Rares, Marcel J. T. Reinders, Reginald L. Lagendijk, Jan Biemond
2002	Misc	`conf`	Image sequence restoration in the presence of pathological motion and severe artifacts. ICASSP Andrei Rares, Marcel J. T. Reinders, Jan Biemond
2002	—	`conf`	Restoration of films affected by partial color artefacts. EUSIPCO Andrei Rares, Marcel J. T. Reinders, Jan Biemond
2002	J	`jnl`	Scale-invariant segmentation of dynamic contrast-enhanced perfusion MR images with inherent scale selection. Comput. Animat. Virtual Worlds Jasper P. Janssen, Michael Egmont-Petersen, Emile A. Hendriks, Marcel J. T. Reinders, Rob J. van der Geest, P. C. W. Hogendoorn, Johan H. C. Reiber
2001	Misc	`conf`	A Comparison of Genetic Network Models. Pacific Symposium on Biocomputing Lodewyk F. A. Wessels, Eugene P. van Someren, Marcel J. T. Reinders
2001	—	`conf`	Complex event classification in degraded image sequences. ICIP (1) Andrei Rares, Marcel J. T. Reinders, Jan Biemond
2001	—	`conf`	Dating and Authentication of Rembrandt's Etchings with the Help of Computational Intelligence. ICHIM (1) Jan C. A. van der Lubbe, Eugene P. van Someren, Marcel J. T. Reinders
2001	C	`conf`	Determination of Binding Amino Acids Based on Random Peptide Array Screening Data. WABI Peter J. van der Veen, Lodewyk F. A. Wessels, J. W. Slootstra, R. H. Meloen, Marcel J. T. Reinders, Johannes Hellendoorn
2001	B	`conf`	Facial Landmarks Localization Based on Fuzzy and Gabor Wavelet Graph Matching. FUZZ-IEEE Resmana Lim, Marcel J. T. Reinders
2001	J	`jnl`	Resolving Motion Correspondence for Densely Moving Points. IEEE Trans. Pattern Anal. Mach. Intell. Cor J. Veenman, Marcel J. T. Reinders, Eric Backer
2001	J	`jnl`	Utility map reconstruction. Int. J. Geogr. Inf. Sci. J. P. De Knecht, John G. M. Schavemaker, Marcel J. T. Reinders, Albert M. Vossepoel
2000	A	`conf`	Competitive Segmentation: A Struggle for Image Space. PPSN Cor J. Veenman, Marcel J. T. Reinders, Eric Backer
2000	B	`conf`	Detecting Generic Low-Level Features in Images. ICPR Bang Jun Lei, Emile A. Hendriks, Marcel J. T. Reinders
2000	B	`conf`	Eye Activity Detection and Recognition Using Morphological Scale-Space Decomposition. ICPR Ilse Ravyse, Hichem Sahli, Jan Cornelis, Marcel J. T. Reinders
2000	J	`jnl`	Image sharpening by morphological filtering. Pattern Recognit. John G. M. Schavemaker, Marcel J. T. Reinders, Jan J. Gerbrands, Eric Backer
2000	A	`conf`	Linear Modeling of Genetic Networks from Experimental Data. ISMB Eugene P. van Someren, Lodewyk F. A. Wessels, Marcel J. T. Reinders
2000	B	`conf`	Object Tracking by Adaptive Modeling. ICIP Andrei Rares, Marcel J. T. Reinders
2000	J	`jnl`	On-line detection of red blood cell shape using deformable templates. Pattern Recognit. Lett. P. J. H. Bronkorsta, Marcel J. T. Reinders, Emile A. Hendriks, J. Grimbergen, Rob M. Heethaar, G. J. Brakenhoff
1999	J	`jnl`	Information processing for intelligent molecular diagnosis. Pattern Recognit. Lett. Lodewyk F. A. Wessels, Eugene P. van Someren, Marcel J. T. Reinders
1998	—	`conf`	A Fast and Robust Point Tracking Algorithm. ICIP (3) Cor J. Veenman, Emile A. Hendriks, Marcel J. T. Reinders
1997	—	`conf`	Information Fusion for Conflict Resolution in Map Interpretation. GREC John G. M. Schavemaker, Marcel J. T. Reinders
1996	B	`conf`	Locating Facial Features in Image Sequences using Neural Networks. FG Marcel J. T. Reinders, R. W. C. Koch, Jan J. Gerbrands
1995	J	`jnl`	Facial feature localization and adaptation of a generic face model for model-based coding. Signal Process. Image Commun. Marcel J. T. Reinders, P. J. L. van Beek, Bülent Sankur, Jan C. A. van der Lubbe
1993	C	`conf`	Tracking of global motion and facial expressions of a human face in image sequences. VCIP Marcel J. T. Reinders, F. A. Odijk, Jan C. A. van der Lubbe, Jan J. Gerbrands
1992	—	`conf`	Transformation of a general 3D facial model to an actual scene face. ICPR (3) Marcel J. T. Reinders, Bülent Sankur, Jan C. A. van der Lubbe