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UMC Repository: Recent submissions

  • Niercysten 
    Vrieling-Prince, F.H.M.; Cornelissen, E.A.M.; van Eerde, AM; Mekahli, Djalila; Lilien, Marc (2022-11-01)
  • Exploring Embedding Spaces for more Coherent Topic Modeling in Electronic Health Records 
    Rijcken, Emil; Zervanou, Kalliopi; Spruit, Marco; Mosteiro, Pablo; Scheepers, Floortje; Kaymak, Uzay (Institute of Electrical and Electronics Engineers Inc., 2022)
    The written notes in the Electronic Health Records contain a vast amount of information about patients. Implementing automated approaches for text classification tasks requires the automated methods to be well-interpretable, ...
  • "It's All in the Game" A board game to facilitate disease-related conversations between children with a chronic disease and their peers 
    Vermeulen, Lieke; Birk, Max V.; Bateman, Scott; Schipper, Henk S.; Nijhof, Sanne L.; Lu, Yuan (Association for Computing Machinery, Inc, 2022-11-02)
    Communication about chronic disease is challenging for affected children and their peers. However, peers play a crucial role in the quality of life, reduction of disease burden, and adherence to treatment regimens of ...
  • Generalized Probabilistic U-Net for Medical Image Segementation 
    Bhat, Ishaan; Pluim, Josien P.W.; Kuijf, Hugo J. (Springer Science and Business Media Deutschland GmbH, 2022)
    We propose the Generalized Probabilistic U-Net, which extends the Probabilistic U-Net [14] by allowing more general forms of the Gaussian distribution as the latent space distribution that can better approximate the ...
  • Extending Probabilistic U-Net Using MC-Dropout to Quantify Data and Model Uncertainty 
    Bhat, Ishaan; Kuijf, Hugo J. (Springer Science and Business Media Deutschland GmbH, 2022)
    We extend the Probabilistic U-Net using MC-Dropout to estimate model uncertainty in addition to the data uncertainty in order to improve the overall predictive uncertainty estimate. We use this model on the datasets present ...
  • Simultaneous Quantification of Spatial Genome Positioning and Transcriptomics in Single Cells with scDam&T-Seq 
    Lochs, Silke J.A.; Kind, Jop (Humana New YorkHumana New York, 2022-07-23)
    Spatial genome organization is considered to play an important role in mammalian cells, by guiding gene expression programs and supporting lineage specification. Yet it is still an outstanding question in the field what ...
  • Multi-modal Volumetric Concept Activation to Explain Detection and Classification of Metastatic Prostate Cancer on PSMA-PET/CT 
    Kraaijveld, R. C.J.; Philippens, M. E.P.; Eppinga, W. S.C.; Jürgenliemk-Schulz, I. M.; Gilhuijs, K. G.A.; Kroon, P. S.; van der Velden, B. H.M. (Springer Science and Business Media Deutschland GmbH, 2022)
    Explainable artificial intelligence (XAI) is increasingly used to analyze the behavior of neural networks. Concept activation uses human-interpretable concepts to explain neural network behavior. This study aimed at assessing ...
  • Mapping Acoustics to Articulatory Gestures in Dutch: Relating Speech Gestures, Acoustics and Neural Data 
    Favero, Paolo; Berezutskaya, Julia; Ramsey, Nick F.; Nazarov, Aleksei; Freudenburg, Zachary V. (IEEE, 2022-07-01)
    Completely locked-in patients suffer from paralysis affecting every muscle in their body, reducing their communication means to brain-computer interfaces (BCIs). State-of-the-art BCIs have a slow spelling rate, which ...
  • A global perspective on training and education in child and adolescent psychiatry 
    Deschamps, PKH; Hansen, Anne Sofie; Jacobs, Brian; Hunt, Jeffrey; Piot, Mariek Aude; Robertson, Paul; Pereira-Sanchez, Victor; Chachar, Aisha; Cardozo Alarcon, Andres Camilo; Daniel, Helena; Lee Lewis, Alvin; Moussa, Suaad; van der Schaaf, Marieke; Schuh Teixeira da Rosa, Andre Luiz; Wiguna, Tjhin; Younus, Sana; Yamashita, Hiroshi (International Association for Child and Adolescent Psychiatry and Allied Professions, 2022)
    This chapter takes a global look at training in child and adolescent psychiatry (CAP). We provide an overview of the history and current state of CAP training internationally including common models for training that have ...
  • Brain Development, Promoting Sleep and Well-Being in the Context of Neonatal Developmental Care 
    Petty, Julia; van den Hoogen, A (Springer, 2022-04-23)
    The principles of developmental care that optimize the long-term outcomes of our vulnerable premature babies apply to neonatal health professionals wherever they work in the world. Protecting and supporting sleep is a core ...
  • Western Europe 
    van den Hoogen, A; Hanke Drilesma, Ingrid; Peters, Ellis; Wielenga, Joke M (Springer, 2022-04-26)
    In many Western European countries, neonatal nurses are seen as a specialized group within pediatric nursing, while some countries do not have any specialized groups of nurses and societies. Europe has no specific society ...
  • A Comparative Study of Fuzzy Topic Models and LDA in terms of Interpretability 
    Rijcken, Emil; Scheepers, Floortje; Mosteiro, Pablo; Zervanou, Kalliopi; Spruit, Marco; Kaymak, Uzay (Institute of Electrical and Electronics Engineers Inc., 2021)
    In many domains that employ machine learning models, both high performing and interpretable models are needed. A typical machine learning task is text classification, where models are hardly interpretable. Topic models, ...
  • MixMicrobleedNet: segmentation of cerebral microbleeds using nnU-Net 
    Kuijf, Hugo (2021)
    Cerebral microbleeds are small hypointense lesions visible on magnetic resonance imaging (MRI) with gradient echo, T2*, or susceptibility weighted (SWI) imaging. Assessment of cerebral microbleeds is mostly performed by ...
  • MixMicrobleed: Multi-stage detection and segmentation of cerebral microbleeds 
    Girones Sanguesa, Marta; Kutnar, Denis; van der Velden, Bas; Kuijf, Hugo (2021)
    Cerebral microbleeds are small, dark, round lesions that can be visualised on T2*-weighted MRI or other sequences sensitive to susceptibility effects. In this work, we propose a multi-stage approach to both microbleed ...
  • MixLacune: Segmentation of lacunes of presumed vascular origin 
    Kutnar, Denis; van der Velden, Bas; Girones Sanguesa, Marta; Geerlings, Mirjam I; Biesbroek, Matthijs; Kuijf, Hugo (2021)
    Lacunes of presumed vascular origin are fluid-filled cavities of between 3 - 15 mm in diameter, visible on T1 and FLAIR brain MRI. Quantification of lacunes relies on manual annotation or semi-automatic / interactive ...
  • Chromatin Immunoprecipitation Sequencing (ChIP-seq) Protocol for Small Amounts of Frozen Biobanked Cardiac Tissue 
    Pei, Jiayi; van den Dungen, Noortje A M; Asselbergs, Folkert W; Mokry, Michal; Harakalova, Magdalena (Humana Press, 2022)
    Chromatin immunoprecipitation and sequencing (ChIP-seq) is a well-established method to study the epigenetic profile at the genome-wide scale, including histone modifications and DNA-protein interactions. It provides ...
  • Evaluation of an implementation protocol for digitization and devices in operating rooms 
    Misser, Navin Sewberath; Jaspers, Joris; van Zaane, Bas; Gooszen, Hein; Versendaal, Johan (University of Maribor Press/Association for Information Systems Electronic Library, AISeL, 2021)
    Implementing new information systems and devices, in high-reliability organizations such as operating rooms (OR's) in hospitals, is complex. To improve the success and efficiency of these implementations we constructed a ...
  • Method for Depletion of IgG and IgM from Human Serum as Naive Complement Source 
    Zwarthoff, Seline A.; Magnoni, Simone; Aerts, Piet C.; van Kessel, Kok P.M.; Rooijakkers, Suzan H.M. (Humana Press Inc., 2021)
    Understanding how human complement proteins interact with human antibodies is important for the development of antibody therapies and understanding autoimmune diseases. At present, many groups use baby rabbit serum as a ...
  • Automated Comprehensive Interpretation of 12-lead Electrocardiograms Using Pre-trained Exponentially Dilated Causal Convolutional Neural Networks 
    Bos, Max N.; Van De Leur, Rutger R.; Vranken, Jeroen F.; Gupta, Deepak K.; Van Der Harst, Pim; Doevendans, Pieter A.; Van Es, Rene (IEEE Computer Society Press, 2020-09-13)
    Correct interpretation of the electrocardiogram (ECG) is critical for the diagnosis of many cardiac diseases, and current computerized algorithms are not accurate enough to provide automated comprehensive interpretation ...
  • Supporting Study Behavior with the THERMOS Learning Analytics Dashboard 
    de Vreugd, Lars; van der Schaaf, Marieke; Jansen, Renée; van Leeuwen, Anouschka (Society for Learning Analytics Research (SoLAR), 2021-04-16)
    The THERMOS dashboard provides students with actionable feedback regarding the following aspects of study behavior: motivation, engagement, groupwork skills and progress. These aspects are visualized on a learning analytics ...