Transformation of a general 3D facial model to an actual scene face. - Marcel J. T. Reinders; Bülent Sankur; Jan C. A. van der Lubbe (ICPR (3), 1992)

Tracking of global motion and facial expressions of a human face in image sequences. - Marcel J. T. Reinders; F. A. Odijk; Jan C. A. van der Lubbe; Jan J. Gerbrands (VCIP, 1993)

Facial feature localization and adaptation of a generic face model for model-based coding. - Marcel J. T. Reinders; P. J. L. van Beek; Bülent Sankur; Jan C. A. van der Lubbe (Signal Process. Image Commun., 1995)

Locating Facial Features in Image Sequences using Neural Networks. - Marcel J. T. Reinders; R. W. C. Koch; Jan J. Gerbrands (FG, 1996)

Information Fusion for Conflict Resolution in Map Interpretation. - John G. M. Schavemaker; Marcel J. T. Reinders (GREC, 1997)

A Fast and Robust Point Tracking Algorithm. - Cor J. Veenman; Emile A. Hendriks; Marcel J. T. Reinders (ICIP (3), 1998)

Information processing for intelligent molecular diagnosis. - Lodewyk F. A. Wessels; Eugene P. van Someren; Marcel J. T. Reinders (Pattern Recognit. Lett., 1999)

Object Tracking by Adaptive Modeling. - Andrei Rares; Marcel J. T. Reinders (ICIP, 2000)

Detecting Generic Low-Level Features in Images. - Bang Jun Lei; Emile A. Hendriks; Marcel J. T. Reinders (ICPR, 2000)

Eye Activity Detection and Recognition Using Morphological Scale-Space Decomposition. - Ilse Ravyse; Hichem Sahli; Jan Cornelis 001; Marcel J. T. Reinders (ICPR, 2000)

Linear Modeling of Genetic Networks from Experimental Data. - Eugene P. van Someren; Lodewyk F. A. Wessels; Marcel J. T. Reinders (ISMB, 2000)

Competitive Segmentation: A Struggle for Image Space. - Cor J. Veenman; Marcel J. T. Reinders; Eric Backer (PPSN, 2000)

Image sharpening by morphological filtering. - John G. M. Schavemaker; Marcel J. T. Reinders; Jan J. Gerbrands; Eric Backer (Pattern Recognit., 2000)

On-line detection of red blood cell shape using deformable templates. - P. J. H. Bronkorsta; Marcel J. T. Reinders; Emile A. Hendriks; J. Grimbergen; Rob M. Heethaar; G. J. Brakenhoff (Pattern Recognit. Lett., 2000)

Facial Landmarks Localization Based on Fuzzy and Gabor Wavelet Graph Matching. - Resmana Lim; Marcel J. T. Reinders (FUZZ-IEEE, 2001)

Dating and Authentication of Rembrandt's Etchings with the Help of Computational Intelligence. - Jan C. A. van der Lubbe; Eugene P. van Someren; Marcel J. T. Reinders (ICHIM (1), 2001)

Complex event classification in degraded image sequences. - Andrei Rares; Marcel J. T. Reinders; Jan Biemond (ICIP (1), 2001)

A Comparison of Genetic Network Models. - Lodewyk F. A. Wessels; Eugene P. van Someren; Marcel J. T. Reinders (Pacific Symposium on Biocomputing, 2001)

Determination of Binding Amino Acids Based on Random Peptide Array Screening Data. - Peter J. van der Veen; Lodewyk F. A. Wessels; J. W. Slootstra; R. H. Meloen; Marcel J. T. Reinders; Johannes Hellendoorn (WABI, 2001)

Utility map reconstruction. - J. P. De Knecht; John G. M. Schavemaker; Marcel J. T. Reinders; Albert M. Vossepoel (Int. J. Geogr. Inf. Sci., 2001)

Resolving Motion Correspondence for Densely Moving Points. - Cor J. Veenman; Marcel J. T. Reinders; Eric Backer (IEEE Trans. Pattern Anal. Mach. Intell., 2001)

Restoration of films affected by partial color artefacts. - Andrei Rares; Marcel J. T. Reinders; Jan Biemond (EUSIPCO, 2002)

Image sequence restoration in the presence of pathological motion and severe artifacts. - Andrei Rares; Marcel J. T. Reinders; Jan Biemond (ICASSP, 2002)

A spatiotemporal image sequence restoration algorithm. - Andrei Rares; Marcel J. T. Reinders; Reginald L. Lagendijk; Jan Biemond (ICIP (2), 2002)

Scale-invariant segmentation of dynamic contrast-enhanced perfusion MR images with inherent scale selection. - 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 (Comput. Animat. Virtual Worlds, 2002)

A Maximum Variance Cluster Algorithm. - Cor J. Veenman; Marcel J. T. Reinders; Eric Backer (IEEE Trans. Pattern Anal. Mach. Intell., 2002)

Experiential sampling for monitoring. - Wei Qi Yan 001; Mohan S. Kankanhalli; Jun Wang 012; Marcel J. T. Reinders (ETP@MM, 2003)

Establishing motion correspondence using extended temporal scope. - Cor J. Veenman; Marcel J. T. Reinders; Eric Backer (Artif. Intell., 2003)

Motion tracking as a constrained optimization problem. - Cor J. Veenman; Marcel J. T. Reinders; Eric Backer (Pattern Recognit., 2003)

Multi-criterion optimization for genetic network modeling. - Eugene P. van Someren; Lodewyk F. A. Wessels; Eric Backer; Marcel J. T. Reinders (Signal Process., 2003)

Studying the Conditions for Learning Dynamic Bayesian Networks to Discover Genetic Regulatory Networks. - Rogier J. P. van Berlo; Eugene P. van Someren; Marcel J. T. Reinders (Simul., 2003)

A cellular coevolutionary algorithm for image segmentation. - Cor J. Veenman; Marcel J. T. Reinders; Eric Backer (IEEE Trans. Image Process., 2003)

Influence of The Observation Likelihood Function on Particle Filtering Performance in Tracking Applications. - Jeroen Lichtenauer; Marcel J. T. Reinders; Emile A. Hendriks (FGR, 2004)

Video content representation on tiny devices. - Jun Wang 012; Marcel J. T. Reinders; Reginald L. Lagendijk; Jasper Lindenberg; Mohan S. Kankanhalli (ICME, 2004)

Local Fisher Embedding. - Dick de Ridder; Marco Loog; Marcel J. T. Reinders (ICPR (2), 2004)

Identifying Orthologs: Cycle Splitting on the Breakpoint Graph. - Rogier J. P. van Berlo; Lodewyk F. A. Wessels; S. D. C. Martes; Marcel J. T. Reinders (CSB Workshops, 2005)

Predicting gene function by combining expression and interaction data. - Rogier J. P. van Berlo; Lodewyk F. A. Wessels; S. D. C. Martes; Marcel J. T. Reinders (CSB Workshops, 2005)

Relating transcription factors, modules of genes and cultivation conditions in Saccharomyces cerevisiae. - Theo A. Knijnenburg; Marcel J. T. Reinders; Jean-Marc Daran; Pascale A. S. Daran-Lapujade; Lodewyk F. A. Wessels (CSB Workshops, 2005)

Multivariate gene selection: Does it help. - Carmen Lai; Marcel J. T. Reinders (CSB Workshops, 2005)

Maximum signi.cance clustering of oligonucleotide microarrays. - Dick de Ridder; Marcel J. T. Reinders; Frank J. T. Staal; Jacques J. M. van Dongen (CSB Workshops, 2005)

Which normalization method is best? A platform-independent biologically inspired quantitative comparison of normalization methods. - Eugene P. van Someren; Marcel J. T. Reinders (CSB Workshops, 2005)

Unravelling the murine osteoblast differentiation pathway by network structure analysis using time-series microarray data. - Eugene P. van Someren; B. L. T. Vaes; W. T. Steegenga; Anneke M. Sijbers; Koen J. Dechering; Marcel J. T. Reinders (CSB Workshops, 2005)

Isophote Properties as Features for Object Detection. - Jeroen Lichtenauer; Emile A. Hendriks; Marcel J. T. Reinders (CVPR (2), 2005)

Self-organizing distributed collaborative filtering. - Jun Wang 012; Marcel J. T. Reinders; Reginald L. Lagendijk; Johan A. Pouwelse (SIGIR, 2005)

A protocol for building and evaluating predictors of disease state based on microarray data. - 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 (Bioinform., 2005)

Constrained Texture Restoration. - Andrei Rares; Marcel J. T. Reinders; Jan Biemond (EURASIP J. Adv. Signal Process., 2005)

The Nearest Subclass Classifier: A Compromise between the Nearest Mean and Nearest Neighbor Classifier. - Cor J. Veenman; Marcel J. T. Reinders (IEEE Trans. Pattern Anal. Mach. Intell., 2005)

Edge-Based Image Restoration. - Andrei Rares; Marcel J. T. Reinders; Jan Biemond (IEEE Trans. Image Process., 2005)

Condition Transition Analysis Reveals TF Activity Related to Nutrient-Limitation-Specific Effects of Oxygen Presence in Yeast. - Theo A. Knijnenburg; Lodewyk F. A. Wessels; Marcel J. T. Reinders (CMSB, 2006)

A User-Item Relevance Model for Log-Based Collaborative Filtering. - Jun Wang 012; Arjen P. de Vries; Marcel J. T. Reinders (ECIR, 2006)

Distributed collaborative filtering for peer-to-peer file sharing systems. - Jun Wang 012; Johan A. Pouwelse; Reginald L. Lagendijk; Marcel J. T. Reinders (SAC, 2006)

Unifying user-based and item-based collaborative filtering approaches by similarity fusion. - Jun Wang 012; Arjen P. de Vries; Marcel J. T. Reinders (SIGIR, 2006)

Maximum significance clustering of oligonucleotide microarrays. - Dick de Ridder; Frank J. T. Staal; Jacques J. M. van Dongen; Marcel J. T. Reinders (Bioinform., 2006)

Least absolute regression network analysis of the murine osteoblast differentiation network. - Eugene P. van Someren; B. L. T. Vaes; W. T. Steegenga; Anneke M. Sijbers; Koen J. Dechering; Marcel J. T. Reinders (Bioinform., 2006)

A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets. - Carmen Lai; Marcel J. T. Reinders; Laura J. van't Veer; Lodewyk F. A. Wessels (BMC Bioinform., 2006)

The effect of oligonucleotide microarray data pre-processing on the analysis of patient-cohort studies. - Roel G. W. Verhaak; Frank J. T. Staal; Peter J. M. Valk; Bob Löwenberg; Marcel J. T. Reinders; Dick de Ridder (BMC Bioinform., 2006)

Detecting Statistically Significant Common Insertion Sites in Retroviral Insertional Mutagenesis Screens. - Jeroen de Ridder; Anthony Uren; Jaap Kool; Marcel J. T. Reinders; Lodewyk F. A. Wessels (PLoS Comput. Biol., 2006)

Artifacts of Markov blanket filtering based on discretized features in small sample size applications. - Theo A. Knijnenburg; Marcel J. T. Reinders; Lodewyk F. A. Wessels (Pattern Recognit. Lett., 2006)

Random subspace method for multivariate feature selection. - Carmen Lai; Marcel J. T. Reinders; Lodewyk F. A. Wessels (Pattern Recognit. Lett., 2006)

Sign language detection using 3D visual cues. - Jeroen Lichtenauer; Gineke A. ten Holt; Emile A. Hendriks; Marcel J. T. Reinders (AVSS, 2007)

Person-Independent 3D Sign Language Recognition. - Jeroen Lichtenauer; Gineke A. ten Holt; Marcel J. T. Reinders; Emile A. Hendriks (Gesture Workshop, 2007)

Co-occurrence analysis of insertional mutagenesis data reveals cooperating oncogenes. - Jeroen de Ridder; Jaap Kool; Anthony Uren; Jan Bot; Lodewyk F. A. Wessels; Marcel J. T. Reinders (ISMB/ECCB (Supplement of Bioinformatics), 2007)

A self-calibrating chrominance model applied to skin color detection. - Jeroen Lichtenauer; Marcel J. T. Reinders; Emile A. Hendriks (VISAPP (1), 2007)

SIRAC: Supervised Identification of Regions of Aberration in aCGH datasets. - 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 (BMC Bioinform., 2007)

Integration of Known Transcription Factor Binding Site Information and Gene Expression Data to Advance from Co-Expression to Co-Regulation. - Maarten Clements; Eugene P. van Someren; Theo A. Knijnenburg; Marcel J. T. Reinders (Genom. Proteom. Bioinform., 2007)

Protein Complex Prediction Using an Integrative Bioinformatics Approach. - Rogier J. P. van Berlo; Lodewyk F. A. Wessels; Dick de Ridder; Marcel J. T. Reinders (J. Bioinform. Comput. Biol., 2007)

Classification in the presence of class noise using a probabilistic Kernel Fisher method. - Yunlei Li; Lodewyk F. A. Wessels; Dick de Ridder; Marcel J. T. Reinders (Pattern Recognit., 2007)

Metabolic Pathway Alignment (M-Pal) Reveals Diversity and Alternatives in Conserved Networks. - Yunlei Li; Dick de Ridder; Marco J. L. de Groot; Marcel J. T. Reinders (APBC, 2008)

Stability cannot be derived from local structure in biochemical networks. - Domenico Bellomo; Peter van Nes; Marcel J. T. Reinders; Dick de Ridder (BIONETICS, 2008)

A learning environment for sign language. - 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; et al. (FG, 2008)

Learning to recognize a sign from a single example. - Jeroen Lichtenauer; Emile A. Hendriks; Marcel J. T. Reinders (FG, 2008)

Combinatorial influence of environmental parameters on transcription factor activity. - Theo A. Knijnenburg; Lodewyk F. A. Wessels; Marcel J. T. Reinders (ISMB, 2008)

Detecting synonyms in social tagging systems to improve content retrieval. - Maarten Clements; Arjen P. de Vries; Marcel J. T. Reinders (SIGIR, 2008)

Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data. - Wouter Meuleman; Judith Y. M. N. Engwegen; Marie-Christine W. Gast; Jos H. Beijnen; Marcel J. T. Reinders; Lodewyk F. A. Wessels (BMC Bioinform., 2008)

Metabolic pathway alignment between species using a comprehensive and flexible similarity measure. - Yunlei Li; Dick de Ridder; Marco J. L. de Groot; Marcel J. T. Reinders (BMC Syst. Biol., 2008)

TRIBLER: a social-based peer-to-peer system. - Johan A. Pouwelse; Pawel Garbacki; Jun Wang 012; Arno Bakker; Jie Yang 015; Alexandru Iosup; Dick H. J. Epema; Marcel J. T. Reinders; Maarten van Steen; Henk J. Sips (Concurr. Comput. Pract. Exp., 2008)

Creating gene set activity profiles with time-series expression data. - Theo A. Knijnenburg; Lodewyk F. A. Wessels; Marcel J. T. Reinders (Int. J. Bioinform. Res. Appl., 2008)

Probabilistic relevance ranking for collaborative filtering. - Jun Wang 012; Stephen Robertson; Arjen P. de Vries; Marcel J. T. Reinders (Inf. Retr., 2008)

Personalization on a peer-to-peer television system. - Jun Wang 012; Johan A. Pouwelse; Jenneke Fokker; Arjen P. de Vries; Marcel J. T. Reinders (Multim. Tools Appl., 2008)

Sign Language Recognition by Combining Statistical DTW and Independent Classification. - Jeroen Lichtenauer; Emile A. Hendriks; Marcel J. T. Reinders (IEEE Trans. Pattern Anal. Mach. Intell., 2008)

Integration of prior knowledge of measurement noise in kernel density classification. - Yunlei Li; Dick de Ridder; Robert P. W. Duin; Marcel J. T. Reinders (Pattern Recognit., 2008)

Erratum to "Classification in the presence of class noise using a probabilistic kernel fisher method": [Pattern Recognition 40 (12) 3349-3357]. - Yunlei Li; Lodewyk F. A. Wessels; Dick de Ridder; Marcel J. T. Reinders (Pattern Recognit., 2008)

Unified relevance models for rating prediction in collaborative filtering. - Jun Wang 012; Arjen P. de Vries; Marcel J. T. Reinders (ACM Trans. Inf. Syst., 2008)

Wi-Fi Walkman. - Arjen P. de Vries; Marcel J. T. Reinders; Jun Wang 012 (Encyclopedia of Wireless and Mobile Communications, 2008)

Personalization on a Peer-to-Peer Television System. - Jun Wang 012; Johan Pouwelse; Jenneke Fokker; Arjen P. de Vries; Marcel J. T. Reinders (Handbook of Multimedia for Digital Entertainment and Arts, 2009)

A sensitivity analysis of microarray feature selection and classification under measurement noise. - Herman M. J. Sontrop; René van den Ham; Perry D. Moerland; Marcel J. T. Reinders; Wim F. J. Verhaegh (GENSiPS, 2009)

Influence of Handshape Information on Automatic Sign Language Recognition. - Gineke A. ten Holt; Marcel J. T. Reinders; Emile A. Hendriks; Huib de Ridder; Andrea J. van Doorn (Gesture Workshop, 2009)

Sign language perception research for improving automatic sign language recognition. - Gineke A. ten Holt; Jeroen Arendsen; Huib de Ridder; Andrea J. Koenderink-van Doorn; Marcel J. T. Reinders; Emile A. Hendriks (Human Vision and Electronic Imaging, 2009)

2D/3D Registration of Micro-CT Data to Multi-View Photographs Based on a 3D Distance Map. - Martin Wildeman; Martin Baiker; Johan H. C. Reiber; Clemens W. G. M. Löwik; Marcel J. T. Reinders; Boudewijn P. F. Lelieveldt (ISBI, 2009)

Exploiting Positive and Negative Graded Relevance Assessments for Content Recommendation. - Maarten Clements; Arjen P. de Vries; Marcel J. T. Reinders (WAW, 2009)

Metabolite and reaction inference based on enzyme specificities. - 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 (Bioinform., 2009)

Fewer permutations, more accurate P-values. - Theo A. Knijnenburg; Lodewyk F. A. Wessels; Marcel J. T. Reinders; Ilya Shmulevich (Bioinform., 2009)

Analysis of mass spectrometry data using sub-spectra. - Wouter Meuleman; Judith Y. M. N. Engwegen; Marie-Christine W. Gast; Lodewyk F. A. Wessels; Marcel J. T. Reinders (BMC Bioinform., 2009)

A comprehensive sensitivity analysis of microarray breast cancer classification under feature variability. - Herman M. J. Sontrop; Perry D. Moerland; René van den Ham; Marcel J. T. Reinders; Wim F. J. Verhaegh (BMC Bioinform., 2009)

Knowledge driven decomposition of tumor expression profiles. - Martin H. van Vliet; Lodewyk F. A. Wessels; Marcel J. T. Reinders (BMC Bioinform., 2009)

Stability from Structure: Metabolic Networks Are Unlike Other Biological Networks. - Peter van Nes; Domenico Bellomo; Marcel J. T. Reinders; Dick de Ridder (EURASIP J. Bioinform. Syst. Biol., 2009)

Evolutionary Optimization of Kernel Weights Improves Protein Complex Comembership Prediction. - Marc Hulsman; Marcel J. T. Reinders; Dick de Ridder (IEEE ACM Trans. Comput. Biol. Bioinform., 2009)

Finding Wormholes with Flickr Geotags. - Maarten Clements; Pavel Serdyukov; Arjen P. de Vries; Marcel J. T. Reinders (ECIR, 2010)

Subtype specific breast cancer event prediction. - Herman M. J. Sontrop; Wim F. J. Verhaegh; René van den Ham; Marcel J. T. Reinders; Perry D. Moerland (GENSiPS, 2010)

Sequence-Based Prediction of Protein Secretion Success in Aspergillus niger. - Bastiaan A. van den Berg; Jurgen F. Nijkamp; Marcel J. T. Reinders; Liang Wu; Herman J. Pel; Johannes A. Roubos; Dick de Ridder (PRIB, 2010)

Using flickr geotags to predict user travel behaviour. - Maarten Clements; Pavel Serdyukov; Arjen P. de Vries; Marcel J. T. Reinders (SIGIR, 2010)

Integrating genome assemblies with MAIA. - Jurgen F. Nijkamp; Wynand Winterbach; Marcel van den Broek; Jean-Marc Daran; Marcel J. T. Reinders; Dick de Ridder (Bioinform., 2010)

Inferring combinatorial association logic networks in multimodal genome-wide screens. - Jeroen de Ridder; Alice Gerrits; Jan Bot; Gerald de Haan; Marcel J. T. Reinders; Lodewyk F. A. Wessels (Bioinform., 2010)

Delineation of amplification, hybridization and location effects in microarray data yields better-quality normalization. - Marc Hulsman; Anouk Mentink; Eugene P. van Someren; Koen J. Dechering; Jan de Boer; Marcel J. T. Reinders (BMC Bioinform., 2010)

HAT: Hypergeometric Analysis of Tiling-arrays with application to promoter-GeneChip data. - Erdogan Taskesen; Renee Beekman; Jeroen de Ridder; Bas J. Wouters; Justine K. Peeters; Ivo P. Touw; Marcel J. T. Reinders; Ruud Delwel (BMC Bioinform., 2010)

The influence of personalization on tag query length in social media search. - Maarten Clements; Arjen P. de Vries; Marcel J. T. Reinders (Inf. Process. Manag., 2010)

Personalization of tagging systems. - Jun Wang 012; Maarten Clements; Jie Yang 015; Arjen P. de Vries; Marcel J. T. Reinders (Inf. Process. Manag., 2010)

Identification of Networks of Co-Occurring, Tumor-Related DNA Copy Number Changes Using a Genome-Wide Scoring Approach. - Christiaan Klijn; Jan Bot; David J. Adams; Marcel J. T. Reinders; Lodewyk F. A. Wessels; Jos Jonkers (PLoS Comput. Biol., 2010)

The task-dependent effect of tags and ratings on social media access. - Maarten Clements; Arjen P. de Vries; Marcel J. T. Reinders (ACM Trans. Inf. Syst., 2010)

Integrating Protein Family Sequence Similarities with Gene Expression to Find Signature Gene Networks in Breast Cancer Metastasis. - Sepideh Babaei; Erik van den Akker 001; Jeroen de Ridder; Marcel J. T. Reinders (PRIB, 2011)

CytoscapeRPC: a plugin to create, modify and query Cytoscape networks from scripting languages. - Jan Bot; Marcel J. T. Reinders (Bioinform., 2011)

Personalised Travel Recommendation based on Location Co-occurrence - Maarten Clements; Pavel Serdyukov; Arjen P. de Vries; Marcel J. T. Reinders (CoRR, 2011)

Integrating Protein-Protein Interaction Networks with Gene-Gene Co-Expression Networks improves Gene Signatures for Classifying Breast Cancer Metastasis. - Erik van den Akker 001; Bas Verbruggen; Bas T. Heijmans; Marian Beekman; Joost N. Kok; Pieternella E. Slagboom; Marcel J. T. Reinders (J. Integr. Bioinform., 2011)

Metabolic network destruction: Relating topology to robustness. - Wynand Winterbach; Huijuan Wang; Marcel J. T. Reinders; Piet Van Mieghem; Dick de Ridder (Nano Commun. Networks, 2011)

Human-inspired search for redundancy in automatic sign language recognition. - Gineke A. ten Holt; Andrea J. van Doorn; Marcel J. T. Reinders; Emile A. Hendriks; Huib de Ridder (ACM Trans. Appl. Percept., 2011)

Predicting Metabolic Fluxes Using Gene Expression Differences As Constraints. - Rogier J. P. van Berlo; Dick de Ridder; Jean-Marc Daran; Pascale A. S. Daran-Lapujade; Bas Teusink; Marcel J. T. Reinders (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

Enabling large genomic data transfers using nation-wide and international dynamic lightpaths. - Jan Bot; Migiel de Vos; Sander Boele; Marcel J. T. Reinders; Joost N. Kok (eScience, 2012)

GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies. - Alexey A. Gritsenko; Jurgen F. Nijkamp; Marcel J. T. Reinders; Dick de Ridder (Bioinform., 2012)

De novo detection of copy number variation by co-assembly. - Jurgen F. Nijkamp; Marcel van den Broek; Jan-Maarten A. Geertman; Marcel J. T. Reinders; Jean-Marc Daran; Dick de Ridder (Bioinform., 2012)

Ibidas: Querying Flexible Data Structures to Explore Heterogeneous Bioinformatics Data. - Marc Hulsman; Jan Bot; Arjen P. de Vries; Marcel J. T. Reinders (DILS, 2013)

Conditional Random Fields for Protein Function Prediction. - Thies Gehrmann; Marco Loog; Marcel J. T. Reinders; Dick de Ridder (PRIB, 2013)

Using Predictive Models to Engineer Biology: A Case Study in Codon Optimization. - Alexey A. Gritsenko; Marcel J. T. Reinders; Dick de Ridder (PRIB, 2013)

Mutational Genomics for Cancer Pathway Discovery. - 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 (PRIB, 2013)

Local Topological Signatures for Network-Based Prediction of Biological Function. - Wynand Winterbach; Piet Van Mieghem; Marcel J. T. Reinders; Huijuan Wang; Dick de Ridder (PRIB, 2013)

Pattern recognition in bioinformatics. - Dick de Ridder; Jeroen de Ridder; Marcel J. T. Reinders (Briefings Bioinform., 2013)

Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold. - Jurgen F. Nijkamp; Mihai Pop; Marcel J. T. Reinders; Dick de Ridder (Bioinform., 2013)

Detecting recurrent gene mutation in interaction network context using multi-scale graph diffusion. - Sepideh Babaei; Marc Hulsman; Marcel J. T. Reinders; Jeroen de Ridder (BMC Bioinform., 2013)

Topology of molecular interaction networks. - Wynand Winterbach; Piet Van Mieghem; Marcel J. T. Reinders; Huijuan Wang; Dick de Ridder (BMC Syst. Biol., 2013)

Efficient calculation of compound similarity based on maximum common subgraphs and its application to prediction of gene transcript levels. - Rogier J. P. van Berlo; Wynand Winterbach; Marco J. L. de Groot; Andreas Bender 002; Peter J. T. Verheijen; Marcel J. T. Reinders; Dick de Ridder (Int. J. Bioinform. Res. Appl., 2013)

The Effect of Aggregating Subtype Performances Depends Strongly on the Performance Measure Used. - David M. J. Tax; Herman M. J. Sontrop; Marcel J. T. Reinders; Perry D. Moerland (ICPR, 2014)

Genomic connectivity networks based on the BrainSpan atlas of the developing human brain. - Ahmed Mahfouz; Mark N. Ziats; Owen M. Rennert; Boudewijn P. F. Lelieveldt; Marcel J. T. Reinders (Image Processing, 2014)

SPiCE: a web-based tool for sequence-based protein classification and exploration. - Bastiaan A. van den Berg; Marcel J. T. Reinders; Johannes A. Roubos; Dick de Ridder (BMC Bioinform., 2014)

Proteny: discovering and visualizing statistically significant syntenic clusters at the proteome level. - Thies Gehrmann; Marcel J. T. Reinders (Bioinform., 2015)

Integration of gene expression and DNA-methylation profiles improves molecular subtype classification in acute myeloid leukemia. - Erdogan Taskesen; Sepideh Babaei; Marcel J. T. Reinders; Jeroen de Ridder (BMC Bioinform., 2015)

An integrated approach of gene expression and DNA-methylation profiles of WNT signaling genes uncovers novel prognostic markers in Acute Myeloid Leukemia. - Erdogan Taskesen; Frank J. T. Staal; Marcel J. T. Reinders (BMC Bioinform., 2015)

Hi-C Chromatin Interaction Networks Predict Co-expression in the Mouse Cortex. - Sepideh Babaei; Ahmed Mahfouz; Marc Hulsman; Boudewijn P. F. Lelieveldt; Jeroen de Ridder; Marcel J. T. Reinders (PLoS Comput. Biol., 2015)

Unbiased Quantitative Models of Protein Translation Derived from Ribosome Profiling Data. - Alexey A. Gritsenko; Marc Hulsman; Marcel J. T. Reinders; Dick de Ridder (PLoS Comput. Biol., 2015)

ECCB 2016: The 15th European Conference on Computational Biology. - Jaap Heringa; Marcel J. T. Reinders; Sanne Abeln; Jeroen de Ridder (Bioinform., 2016)

Continuous infusion of manganese improves contrast and reduces side effects in manganese-enhanced magnetic resonance imaging studies. - Dana S. Poole; Nathalie Doorenweerd; Jaap J. Plomp; Ahmed Mahfouz; Marcel J. T. Reinders; Louise van der Weerd (NeuroImage, 2017)

A structural equation model for imaging genetics using spatial transcriptomics. - Sjoerd M. H. Huisman; Ahmed Mahfouz; Nematollah Kayhan Batmanghelich; Boudewijn P. F. Lelieveldt; Marcel J. T. Reinders (Brain Informatics, 2018)

Bioinformatics in the Netherlands: the value of a nationwide community. - 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 (Briefings Bioinform., 2019)

CyTOFmerge: integrating mass cytometry data across multiple panels. - Tamim Abdelaal; Thomas Höllt; Vincent van Unen; Boudewijn P. F. Lelieveldt; Frits Koning; Marcel J. T. Reinders; Ahmed Mahfouz (Bioinform., 2019)

Improving protein function prediction using protein sequence and GO-term similarities. - Stavros Makrodimitris; Roeland C. H. J. van Ham; Marcel J. T. Reinders (Bioinform., 2019)

PRECISE: a domain adaptation approach to transfer predictors of drug response from pre-clinical models to tumors. - Soufiane Mourragui; Marco Loog; Mark A. van de Wiel; Marcel J. T. Reinders; Lodewyk F. A. Wessels (Bioinform., 2019)

12 Grand Challenges in Single-Cell Data Science. - 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; et al. (PeerJ Prepr., 2019)

PREDICT: Efficient Private Disease Susceptibility Testing in Direct-to-Consumer Model. - Chibuike Ugwuoke; Zekeriya Erkin; Marcel J. T. Reinders; Reginald L. Lagendijk (CODASPY, 2020)

SCHNEL: scalable clustering of high dimensional single-cell data. - Tamim Abdelaal; Paul de Raadt; Boudewijn P. F. Lelieveldt; Marcel J. T. Reinders; Ahmed Mahfouz (Bioinform., 2020)

ImSpectR: R package to quantify immune repertoire diversity in spectratype and repertoire sequencing data. - 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 001 (Bioinform., 2020)

Metric learning on expression data for gene function prediction. - Stavros Makrodimitris; Marcel J. T. Reinders; Roeland C. H. J. van Ham (Bioinform., 2020)

Unsupervised protein embeddings outperform hand-crafted sequence and structure features at predicting molecular function. - Amelia Villegas-Morcillo; Stavros Makrodimitris; Roeland C. H. J. van Ham; Angel M. Gomez; Victoria E. Sánchez; Marcel J. T. Reinders (Bioinform., 2021)

snpXplorer: a web application to explore human SNP-associations and annotate SNP-sets. - Niccolo Tesi; Sven van der Lee; Marc Hulsman; Henne Holstege; Marcel J. T. Reinders (Nucleic Acids Res., 2021)

MiMIR: R-shiny application to infer risk factors and endpoints from Nightingale Health's 1H-NMR metabolomics data. - Daniele Bizzarri; Marcel J. T. Reinders; Marian Beekman; P. Eline Slagboom; Erik van den Akker 001 (Bioinform., 2022)

A framework for employing longitudinally collected multicenter electronic health records to stratify heterogeneous patient populations on disease history. - 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 001; Rachel Knevel (J. Am. Medical Informatics Assoc., 2022)

Self-Supervised PPG Representation Learning Shows High Inter-Subject Variability. - Ramin Ghorbani; Marcel J. T. Reinders; David M. J. Tax (ICMLT, 2023)

Percolate: An Exponential Family JIVE Model to Design DNA-Based Predictors of Drug Response. - Soufiane Mourragui; Marco Loog; Mirrelijn M. van Nee; Mark A. van de Wiel; Marcel J. T. Reinders; Lodewyk F. A. Wessels (RECOMB, 2023)

Cell type matching across species using protein embeddings and transfer learning. - Kirti Biharie; Lieke Michielsen; Marcel J. T. Reinders; Ahmed Mahfouz (Bioinform., 2023)

Improving performance of heart rate time series classification by grouping subjects. - Michael Beekhuizen; Arman Naseri; David M. J. Tax; Ivo van der Bilt; Marcel J. T. Reinders (CoRR, 2023)

Causal inference using observational intensive care unit data: a scoping review and recommendations for future practice. - 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 (npj Digit. Medicine, 2023)

An in-depth comparison of linear and non-linear joint embedding methods for bulk and single-cell multi-omics. - Stavros Makrodimitris; Bram Pronk; Tamim Abdelaal; Marcel J. T. Reinders (Briefings Bioinform., 2023)

Determining epitope specificity of T-cell receptors with transformers. - Abdul Rehman Khan; Marcel J. T. Reinders; Indu Khatri (Bioinform., 2023)

Federated K-Means Clustering. - Swier Garst; Marcel J. T. Reinders (ICPR (2), 2024)

PATE: Proximity-Aware Time Series Anomaly Evaluation. - Ramin Ghorbani; Marcel J. T. Reinders; David M. J. Tax (KDD, 2024)

RESTAD: Reconstruction and Similarity Based Transformer for Time Series Anomaly Detection. - Ramin Ghorbani; Marcel J. T. Reinders; David M. J. Tax (MLSP, 2024)

Personalized anomaly detection in PPG data using representation learning and biometric identification. - Ramin Ghorbani; Marcel J. T. Reinders; David M. J. Tax (Biomed. Signal Process. Control., 2024)

Learning solutions of parametric Navier-Stokes with physics-informed neural networks. - Mahdi Naderibeni; Marcel J. T. Reinders; Liang Wu; David M. J. Tax (CoRR, 2024)

MRI-based and metabolomics-based age scores act synergetically for mortality prediction shown by multi-cohort federated learning. - 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; et al. (CoRR, 2024)

Predicting cell population-specific gene expression from genomic sequence. - Lieke Michielsen; Marcel J. T. Reinders; Ahmed Mahfouz (Frontiers Bioinform., 2024)

A comprehensive experimental comparison between federated and centralized learning. - Swier Garst; Andre Dekker; Marcel J. T. Reinders (Database J. Biol. Databases Curation, 2025)