Deformation correction using Euclidean contour distance maps. - Fons J. Verbeek (ICPR (3), 1992)

A Virtual Lab-Notebook for Multidimensional Microscopic Images. - P. J. Boon; N. Eminovic; A. de Vos; B. Buitendijk; E. J. van Raaij; M. J. den Broeder; W. J. Hage; Fons J. Verbeek (IV, 2000)

Construction of Correlation Networks with Explicit Time-Slices Using Time-Lagged, Variable Interval Standard and Partial Correlation Coefficients. - Wouter Meuleman; Monique C. M. Welten; Fons J. Verbeek (CompLife, 2006)

On Affect and Self-adaptation: Potential Benefits of Valence-Controlled Action-Selection. - Joost Broekens; Walter A. Kosters; Fons J. Verbeek (IWINAC (1), 2007)

Ontological Context Visualization. - Julia Dmitrieva; Yun Bei; Fons J. Verbeek (OWLED, 2007)

Affect, Anticipation, and Adaptation: Affect-Controlled Selection of Anticipatory Simulation in Artificial Adaptive Agents. - Joost Broekens; Walter A. Kosters; Fons J. Verbeek (Adapt. Behav., 2007)

Developmental Anatomy Ontology of Zebrafish: an Integrative semantic framework. - Mounia Belmamoune; Fons J. Verbeek (J. Integr. Bioinform., 2007)

miRNA target prediction through mining of miRNA relationships. - Yanju Zhang; Jeroen S. de Bruin; Fons J. Verbeek (BIBE, 2008)

Integrating computer games in speech therapy for children who stutter. - Daniil Umanski; Walter A. Kosters; Fons J. Verbeek; Niels O. Schiller (WOCCI, 2008)

Data Integration for Spatio-Temporal Patterns of Gene Expression of Zebrafish development: the GEMS database. - Mounia Belmamoune; Fons J. Verbeek (J. Integr. Bioinform., 2008)

The TicTag application: towards tag-based meta-search for browsing the web. - Christina Papakonstantinou; Ioannis Panagiotou; Fons J. Verbeek (BCS HCI, 2009)

Node-Link and Containment Methods in Ontology Visualization. - Julia Dmitrieva; Fons J. Verbeek (OWLED, 2009)

Integration of information from different ontologies. - Julia Dmitrieva; Fons J. Verbeek (SWAT4LS, 2009)

Onto-Frogger: Playing with Semantic Structure. - Amalia Kallergi; Fons J. Verbeek (SWAT4LS, 2009)

Observations on Semantic Annotation of Microscope Images for Life Sciences. - Joris Slob; Amalia Kallergi; Fons J. Verbeek (SWAT4LS, 2009)

Cell Tracking and Data Analysis of in Vitro Tumour Cells from Time-lapse Image Sequences. - Kuan Yan; Fons J. Verbeek; Sylvia Le Dévédec; Bob van de Water (VISAPP (1), 2009)

Modelling Gradients using Petri Nets. - Laura M. F. Bertens; Jetty Kleijn; Maciej Koutny; Fons J. Verbeek (ACSD/Petri Nets Workshops, 2010)

Convex Shape Retrieval from Edge Maps by the use of an Evolutionary Algorithm. - Alexander E. Nezhinsky; Johannes W. Kruisselbrink; Fons J. Verbeek (BIOINFORMATICS, 2010)

Video games for collection exploration: games for and out of data repositories. - Amalia Kallergi; Fons J. Verbeek (MindTrek, 2010)

Onto-Frogger: the making of. - Amalia Kallergi; Fons J. Verbeek (NordiCHI, 2010)

Frequent Episode Mining to Support Pattern Analysis in Developmental Biology. - Ronnie Bathoorn; Monique C. M. Welten; Michael Richardson; Arno Siebes; Fons J. Verbeek (PRIB, 2010)

Pattern Recognition for High Throughput Zebrafish Imaging Using Genetic Algorithm Optimization. - Alexander E. Nezhinsky; Fons J. Verbeek (PRIB, 2010)

Creating a new Ontology: a Modular Approach. - Julia Dmitrieva; Fons J. Verbeek (SWAT4LS, 2010)

Different geometries in ontology visualization. - Julia Dmitrieva; Fons J. Verbeek (VDA, 2010)

Mining and Analysing Spatio-Temporal Patterns of Gene Expression in an Integrative Database Framework. - Mounia Belmamoune; Dome Potikanond; Fons J. Verbeek (J. Integr. Bioinform., 2010)

Comparison and Integration of Target Prediction Algorithms for microRNA Studies. - Yanju Zhang; Fons J. Verbeek (J. Integr. Bioinform., 2010)

Spatio-temporal Modeling and Simulation of Mycobacterium Pathogenesis Using Petri Nets. - Rafael V. Carvalho; Willem Davids; Annemarie H. Meijer; Fons J. Verbeek (BIONETICS, 2011)

Pattern Recognition in High-Content Cytomics Screens for Target Discovery - Case Studies in Endocytosis. - Lu Cao; Kuan Yan; Leah Winkel; Marjo de Graauw; Fons J. Verbeek (PRIB, 2011)

Modular Approach for a New Ontology. - Julia Dmitrieva; Fons J. Verbeek (WoMO, 2011)

Understanding the Artificial. - H. Jaap van den Herik; Maarten H. Lamers; Fons J. Verbeek (Int. J. Soc. Robotics, 2011)

A generic organ based ontology system, applied to vertebrate heart anatomy, development and physiology. - Laura M. F. Bertens; Joris Slob; Fons J. Verbeek (J. Integr. Bioinform., 2011)

Identification of Common Carp Innate Immune Genes with Whole-Genome Sequencing and RNA-Seq Data. - Yanju Zhang; Elia Stupka; Christiaan V. Henkel; Hans J. Jansen; Herman P. Spaink; Fons J. Verbeek (J. Integr. Bioinform., 2011)

Digital Atlasing and Standardization in the Mouse Brain. - Michael Hawrylycz; Richard A. Baldock; Albert Burger; Tsutomu Hashikawa; G. Allan Johnson; Maryann E. Martone; Lydia Ng; Christopher Lau; Stephen D. Larson; Jonathan Nissanov; Luis Puelles; Seth Ruffins; et al. (PLoS Comput. Biol., 2011)

Evaluation of algorithms for point cloud surface reconstruction through the analysis of shape parameters. - Lu Cao; Fons J. Verbeek (Three-Dimensional Image Processing (3DIP) and Applications, 2012)

Numerical Analysis of Image based High Throughput Zebrafish Infection Screens - Matching Meaning with Data. - Alexander E. Nezhinsky; Esther Stoop; Astrid van der Sar; Fons J. Verbeek (BIOINFORMATICS, 2012)

Caveolae image analysis for pathogen diabetes. - Jinshuo Liu; Hui Wu; Qin Cao; Baifang Zhang; Yichun Gu; Mengfei Ren 002; Han Li; Fons J. Verbeek (BMEI, 2012)

Automation in Cytomics: A Modern RDBMS Based Platform for Image Analysis and Management in High-Throughput Screening Experiments. - Enrique Larios; Ying Zhang 027; Kuan Yan; Zi Di; Sylvia LeDévédec; Fabian Groffen; Fons J. Verbeek (HIS, 2012)

Bioscientific Data Processing and Modeling. - Joost N. Kok; Anna-Lena Lamprecht; Fons J. Verbeek; Mark D. Wilkinson (ISoLA (2), 2012)

Efficient and Robust Shape Retrieval from Deformable Templates. - Alexander E. Nezhinsky; Fons J. Verbeek (ISoLA (2), 2012)

Using Multiobjective Optimization and Energy Minimization to Design an Isoform-Selective Ligand of the 14-3-3 Protein. - Hernando Sanchez-Faddeev; Michael T. M. Emmerich; Fons J. Verbeek; Andrew H. Henry; Simon Grimshaw; Herman P. Spaink; Herman W. T. van Vlijmen; Andreas Bender 002 (ISoLA (2), 2012)

Segmentation for High-Throughput Image Analysis: Watershed Masked Clustering. - Kuan Yan; Fons J. Verbeek (ISoLA (2), 2012)

Visualization and analysis of 3D gene expression patterns in zebrafish using web services. - Dome Potikanond; Fons J. Verbeek (Visualization and Data Analysis, 2012)

Modeling Innate Immune Response to Early Mycobacterium Infection. - Rafael V. Carvalho; Jetty Kleijn; Annemarie H. Meijer; Fons J. Verbeek (Comput. Math. Methods Medicine, 2012)

Tinkering in Scientific Education. - Maarten H. Lamers; Fons J. Verbeek; Peter W. H. van der Putten (Advances in Computer Entertainment, 2013)

Track E: Hybrid biological-digital systems. - Maarten H. Lamers; Wim van Eck; Fons J. Verbeek (DEST, 2013)

Nature Inspired Phenotype Analysis with 3D Model Representation Optimization. - Lu Cao; Fons J. Verbeek (IBICA, 2013)

Analytical evaluation of algorithms for point cloud surface reconstruction using shape features. - Lu Cao; Fons J. Verbeek (J. Electronic Imaging, 2013)

A multi-scale extensive Petri net model of the bacterial-macrophage interaction. - Rafael V. Carvalho; Jetty Kleijn; Fons J. Verbeek (BioPPN@Petri Nets, 2014)

Extracting contours of oval-shaped objects by Hough transform and minimal path algorithms. - Mohamed Tleis; Fons J. Verbeek (ICDIP, 2014)

CytomicsDB: A Metadata-Based Storage and Retrieval Approach for High-Throughput Screening Experiments. - Enrique Larios; Ying Zhang 027; Lu Cao; Fons J. Verbeek (PRIB, 2014)

Dam-based rolling ball with fuzzy-rough constraints, a new background subtraction algorithm for image analysis in microscopy. - Fuyu Cai; Fons J. Verbeek (IPTA, 2015)

Silhouette-based 3D model for zebrafish high-throughput imaging. - Yuanhao Guo; Wouter J. Veneman; Herman P. Spaink; Fons J. Verbeek (IPTA, 2015)

Contour expansion algorithm preprocessed by hough transform and circular shortest path for ovoid objects. - Mohamed Tleis; Fons J. Verbeek (IPTA, 2015)

Coupling of Petri Net Models of the Mycobacterial Infection Process and Innate Immune Response. - Rafael V. Carvalho; Jeroen van den Heuvel; Jetty Kleijn; Fons J. Verbeek (Comput., 2015)

Machine Learning approach to discriminate Saccharomyces cerevisiae yeast cells using sophisticated image features. - Mohamed S. Tleis; Fons J. Verbeek (J. Integr. Bioinform., 2015)

Fluorescence and bright-field 3D image fusion based on sinogram unification for optical projection tomography. - Xiaoqin Tang; Merel van't Hoff; Jerry Hoogenboom; Yuanhao Guo; Fuyu Cai; Gerda Lamers; Fons J. Verbeek (BIBM, 2016)

The Impact of Co-Located Play on Social Presence and Game Experience in a VR Game. - Marcello A. Gómez Maureira; Fons J. Verbeek (DiGRA/FDG, 2016)

Making Sense of Illustrated Handwritten Archives. - Lambert Schomaker; Andreas Weber 008; Michiel Thijssen; Maarten Heerlien; Aske Plaat; Siegfried Nijssen; Fons J. Verbeek; Michael S. Lew; Eulalia Gasso Miracle; Katy Wolstencroft; Ernest Suyver; Bart Verheij; et al. (DH, 2016)

The Morality Machine: Tracking Moral Values in Tweets. - Livia Teernstra; Peter van der Putten; Liesbeth Noordegraaf-Eelens; Fons J. Verbeek (IDA, 2016)

A Semantic-Based Metadata Validation for an Automated High-Throughput Screening Workflow: Case Study in CytomicsDB. - Enrique Larios Vargas; Zhihan Xia; Joris Slob; Fons J. Verbeek (IWBBIO, 2016)

Segmentation of Zebrafish Larva Inhomogeneous 3D Images Using the Level-Set Method. - Zhan Xiong; Fons J. Verbeek (Visualization and Data Analysis, 2016)

Hierarchical classification strategy for Phenotype extraction from epidermal growth factor receptor endocytosis screening. - Lu Cao; Marjo de Graauw; Kuan Yan; Leah Winkel; Fons J. Verbeek (BMC Bioinform., 2016)

Rough Fuzzy C-means and Particle Swarm Optimization Hybridized Method for Information Clustering Problem. - Fuyu Cai; Fons J. Verbeek (J. Commun., 2016)

Modeling biological gradient formation: combining partial differential equations and Petri nets. - Laura M. F. Bertens; Jetty Kleijn; Sander C. Hille; Monika Heiner; Maciej Koutny; Fons J. Verbeek (Nat. Comput., 2016)

Conceptual Process Models and Quantitative Analysis of Classification Problems in Scrum Software Development Practices. - Leon S. Helwerda; Frank Niessink; Fons J. Verbeek (KDIR, 2017)

Multi-modal 3d reconstruction and measurements of zebrafish larvae and its organs using axial-view microscopy. - Yuanhao Guo; Hermes A. J. Spaink; E. H. J. Krekels; Herman P. Spaink; Piet H. Van Der Graaf; Fons J. Verbeek (ICIP, 2017)

On the Efficiency of a VR Hand Gesture-Based Interface for 3D Object Manipulations in Conceptual Design. - Remi Alkemade; Fons J. Verbeek; Stephan G. Lukosch (Int. J. Hum. Comput. Interact., 2017)

A Two-Phase 3-D Reconstruction Approach for Light Microscopy Axial-View Imaging. - Yuanhao Guo; Yunpeng Zhang; Fons J. Verbeek (IEEE J. Sel. Top. Signal Process., 2017)

Fast and Accurate Person Re-identification with Xception Conv-Net and C2F. - Arthur van Rooijen; Henri Bouma; Fons J. Verbeek (CIARP, 2018)

From Handwritten Manuscripts to Linked Data. - Lise Stork; Andreas Weber 008; H. Jaap van den Herik; Aske Plaat; Fons J. Verbeek; Katherine Wolstencroft (TPDL, 2018)

An efficient and robust hybrid method for segmentation of zebrafish objects from bright-field microscope images. - Yuanhao Guo; Zhan Xiong; Fons J. Verbeek (Mach. Vis. Appl., 2018)

3D Image Deblur using Point Spread Function Modelling for Optical Projection Tomography. - Xiaoqin Tang; Gerda Lamers; Fons J. Verbeek (BIOIMAGING, 2019)

Automated Semantic Annotation of Species Names in Handwritten Texts. - Lise Stork; Andreas Weber 008; H. Jaap van den Herik; Aske Plaat; Fons J. Verbeek; Katherine Wolstencroft (ECIR (1), 2019)

Semantic annotation of natural history collections. - Lise Stork; Andreas Weber 008; Eulalia Gasso Miracle; Fons J. Verbeek; Aske Plaat; H. Jaap van den Herik; Katherine Wolstencroft (J. Web Semant., 2019)

Probabilistic Inference for Camera Calibration in Light Microscopy Under Circular Motion. - Yuanhao Guo; Fons J. Verbeek; Ge Yang 002 (ISBI, 2020)

A Cross-Stitch Architecture for Joint Registration and Segmentation in Adaptive Radiotherapy. - Laurens Beljaards; Mohamed S. Elmahdy; Fons J. Verbeek; Marius Staring (MIDL, 2020)

The Importance of the Peak-End Rule for Repeated Visits to Augmented Play Spaces. - Danica Mast; Sanne de Vries; Joost Broekens; Fons J. Verbeek (PERSUASIVE (Adjunct), 2020)

Automated image analysis system for studying cardiotoxicity in human pluripotent stem cell-Derived cardiomyocytes. - Lu Cao; Andries D. van der Meer; Fons J. Verbeek; Robert Passier (BMC Bioinform., 2020)

L-systems from 3D-imaging of Phenotypes of Arborized Structures. - Fons J. Verbeek; Lu Cao (Fundam. Informaticae, 2020)

Fungal metabarcoding data integration framework for the MycoDiversity DataBase (MDDB). - Irene Martorelli; Leon S. Helwerda; Jesse Kerkvliet; Sofia I. F. Gomes; Jorinde Nuytinck; Chivany R. A. van der Werff; Guus J. Ramackers; Alexander P. Gultyaev; Vincent S. F. T. Merckx; Fons J. Verbeek (J. Integr. Bioinform., 2020)

Segmentation-Driven Optimization For Iterative Reconstruction in Optical Projection Tomography: An Exploration. - Xiaoqin Tang; Hermes A. J. Spaink; Rob C. van Wijk; Fons J. Verbeek (IEEE Trans. Computational Imaging, 2020)

Improving evaluation of NO2 emission from ships using spatial association on TROPOMI satellite data. - Solomiia Kurchaba; Jasper van Vliet; Jacqueline J. Meulman; Fons J. Verbeek; Cor J. Veenman (SIGSPATIAL/GIS, 2021)

Binarization Strategy Using Multiple Convolutional Autoencoder Network for Old Sundanese Manuscript Images. - Erick Paulus; Jean-Christophe Burie; Fons J. Verbeek (ICDAR Workshops (2), 2021)

Detection of Mulberry Ripeness Stages Using Deep Learning Models. - Seyed-Hassan Miraei Ashtiani; Shima Javanmardi; Mehrdad Jahanbanifard; Alex I. Martynenko; Fons J. Verbeek (IEEE Access, 2021)

Joint Registration and Segmentation via Multi-Task Learning for Adaptive Radiotherapy of Prostate Cancer. - Mohamed S. Elmahdy; Laurens Beljaards; Sahar Yousefi; Hessam Sokooti; Fons J. Verbeek; Uulke A. van der Heide; Marius Staring (IEEE Access, 2021)

A database of flavivirus RNA structures with a search algorithm for pseudoknots and triple base interactions. - Alan Zammit; Leon S. Helwerda; René C. L. Olsthoorn; Fons J. Verbeek; Alexander P. Gultyaev (Bioinform., 2021)

Establishing a consensus for the hallmarks of cancer based on gene ontology and pathway annotations. - Yi Chen; Fons J. Verbeek; Katherine Wolstencroft (BMC Bioinform., 2021)

Large-scale zero-shot learning in the wild: Classifying zoological illustrations. - Lise Stork; Andreas Weber 008; H. Jaap van den Herik; Aske Plaat; Fons J. Verbeek; Katherine Wolstencroft (Ecol. Informatics, 2021)

The Participant Journey Map: Understanding the Design of Interactive Augmented Play Spaces. - Danica Mast; Sanne I. de Vries; Joost Broekens; Fons J. Verbeek (Frontiers Comput. Sci., 2021)

A Feature Weighted Tracking Method for 3D Neutrophils in Time-lapse Microscopy. - Chen Li; Wilson W. C. Yiu; Wanbin Hu; Lu Cao; Fons J. Verbeek (BIBM, 2022)

Real-time interactive visualization of large networks on a tiled display system. - Govert G. Brinkmann; Kristian F. D. Rietveld; Fons J. Verbeek; Frank W. Takes (Displays, 2022)

Supervised Segmentation of NO2 Plumes from Individual Ships Using TROPOMI Satellite Data. - Solomiia Kurchaba; Jasper van Vliet; Fons J. Verbeek; Jacqueline J. Meulman; Cor J. Veenman (Remote. Sens., 2022)

Caps Captioning: A Modern Image Captioning Approach Based on Improved Capsule Network. - Shima Javanmardi; Ali Mohammad Latif; Mohammad Taghi Sadeghi; Mehrdad Jahanbanifard; Marcello M. Bonsangue; Fons J. Verbeek (Sensors, 2022)

Participation Patterns of Interactive Playful Museum Exhibits: Evaluating the Participant Journey Map through Situated Observations. - Danica Mast; Joost Broekens; Sanne I. de Vries; Fons J. Verbeek (Conference on Designing Interactive Systems, 2023)

Using a Novel Capsule Network For an Innovative Approach to Image Captioning. - Shima Javanmardi; Mehrdad Jahanbanifard; Marcello M. Bonsangue; Fons J. Verbeek (SDU@AAAI, 2023)

Foreground Extraction in Histo-Pathological Image by Combining Mathematical Morphology Operations and U-Net. - Jia Li; Junling He; Jingmin Long; Chenxu Wang 001; Jesper Kers; Fons J. Verbeek (BIOIMAGING, 2023)

FAIR Functional Enrichment: Assessing and Modelling Provenance in Omics Results. - Yi Chen; Fons J. Verbeek; Katherine Wolstencroft (SWAT4HCLS, 2023)

Detection of anomalously emitting ships through deviations from predicted TROPOMI NO2 retrievals. - Solomiia Kurchaba; Jasper van Vliet; Fons J. Verbeek; Cor J. Veenman (CoRR, 2023)

Advances in Kidney Biopsy Structural Assessment through Dense Instance Segmentation. - Zhan Xiong; Junling He; Pieter Valkema; Tri Q. Nguyen; Maarten Naesens; Jesper Kers; Fons J. Verbeek (CoRR, 2023)

Analysis of automatic image classification methods for Urticaceae pollen classification. - Chen Li; Marcel Polling; Lu Cao; Barbara Gravendeel; Fons J. Verbeek (Neurocomputing, 2023)

Fine-grained label learning in object detection with weak supervision of captions. - Xue Wang; Youtian Du; Suzan Verberne; Fons J. Verbeek (Multim. Tools Appl., 2023)

Improving weakly supervised phrase grounding via visual representation contextualization with contrastive learning. - Xue Wang; Youtian Du; Suzan Verberne; Fons J. Verbeek (Appl. Intell., 2023)

Text line extraction strategy for palm leaf manuscripts. - Erick Paulus; Jean-Christophe Burie; Fons J. Verbeek (Pattern Recognit. Lett., 2023)

Image Synthesis and Modified BlendMask Instance Segmentation for Automated Nanoparticle Phenotyping. - Xiaoqin Tang; Lingpeng Lv; Shima Javanmardi; Yunfeng Wang; Jingchuan Fan; Fons J. Verbeek; Guoqiang Xiao 001 (IEEE Trans. Medical Imaging, 2023)

Visualizing, Analyzing and Constructing L-System from Arborized 3D Model Using a Web Application. - Nick van Nielen; Fons J. Verbeek; Lu Cao (BIOSTEC (1), 2024)

Exploring the Evolution of the Gene Ontology and its Impact on Enrichment Analysis. - Yi Chen; Frank W. Takes; Fons J. Verbeek; Katherine Wolstencroft (ICBO, 2024)

Weakly Supervised Semantic Segmentation via Contextual Cross-Attention. - Zhan Xiong; Fons J. Verbeek (ICFSP, 2024)

Advancing Machine Learning for Stellar Activity and Exoplanet Period Rotation. - Fatemeh Fazel Hesar; Bernard H. Foing; Ana M. Heras; Mojtaba Raouf; Victoria Foing; Shima Javanmardi; Fons J. Verbeek (CoRR, 2024)

MS2OD: outlier detection using minimum spanning tree and medoid selection. - Jia Li; Jiangwei Li; Chenxu Wang 001; Fons J. Verbeek; Tanja Schultz; Hui Liu 035 (Mach. Learn. Sci. Technol., 2024)

User Experience, Attitude towards Replay and Play Endings - a semi-Situated Study of an Interactive Play Space. - Danica Mast; Joost Broekens; Sanne Irene de Vries; Fons J. Verbeek (Conference on Designing Interactive Systems, 2025)

Analysis of 3D Urticaceae Pollen Classification Using Deep Learning Models. - Tijs Konijn; Imaan Bijl; Lu Cao; Fons J. Verbeek (BIOSTEC (1), 2025)

Advances in kidney biopsy lesion assessment through dense instance segmentation. - Zhan Xiong; Junling He; Pieter Valkema; Tri Q. Nguyen; Maarten Naesens; Jesper Kers; Fons J. Verbeek (Artif. Intell. Medicine, 2025)

Using Machine Learning for Lunar Mineralogy-I: Hyperspectral Imaging of Volcanic Samples. - Fatemeh Fazel Hesar; Mojtaba Raouf; Peyman Soltani; Bernard Foing; Michiel J. A. de Dood; Fons J. Verbeek; Esther Cheng; Chenming Zhou (CoRR, 2025)