A5006657933- Cell Image Analysis Techniques
- Advanced MRI Techniques and Applications
- Single-cell and spatial transcriptomics
- Advanced Fluorescence Microscopy Techniques
- Neuroinflammation and Neurodegeneration Mechanisms
- Adipose Tissue and Metabolism
- Medical Imaging Techniques and Applications
- Cardiac Imaging and Diagnostics
- Mitochondrial Function and Pathology
- Image Processing Techniques and Applications
- Cardiovascular Disease and Adiposity
- Spectroscopy Techniques in Biomedical and Chemical Research
- Stress Responses and Cortisol
- AI in cancer detection
- Genetics, Aging, and Longevity in Model Organisms
- Advanced Neuroimaging Techniques and Applications
- Medical Image Segmentation Techniques
- Neonatal Respiratory Health Research
- Radiation Therapy and Dosimetry
- Parkinson's Disease Mechanisms and Treatments
- Radiomics and Machine Learning in Medical Imaging
- Photoacoustic and Ultrasonic Imaging
- MRI in cancer diagnosis
- Neurological Disease Mechanisms and Treatments
- Blind Source Separation Techniques
Leiden University Medical Center
2015-2024
Leiden University
2014-2021
Erasmus University Rotterdam
2007-2014
Erasmus MC
2009-2014
Universidad de Navarra
2014
Heidelberg University
2014
University Hospital Heidelberg
2014
Delft University of Technology
2010
Pidstryhach Institute for Applied Problems of Mechanics and Mathematics
2003
Abstract Motivation: Automatic tracking of cells in multidimensional time-lapse fluorescence microscopy is an important task many biomedical applications. A novel framework for objective evaluation cell algorithms has been established under the auspices IEEE International Symposium on Biomedical Imaging 2013 Cell Tracking Challenge. In this article, we present logistics, datasets, methods and results challenge lay down principles future uses benchmark. Results: The main contributions include...
Cell segmentation and tracking in time-lapse fluorescence microscopy images is a task of fundamental importance many biological studies on cell migration proliferation. In recent years, level sets have been shown to provide very appropriate framework for this purpose, as they are well suited capture topological changes occurring during mitosis, easily extend higher dimensional image data. This model evolution approach has also extended deal with cells concurrently. Notwithstanding its high...
Abstract Brain iron accumulation has been found to accelerate disease progression in amyloid-β(Aβ) positive Alzheimer patients, though the mechanism is still unknown. Microglia have identified as key players pathogenesis, and are highly reactive cells responding aberrations such increased levels. Therefore, using histological methods, multispectral immunofluorescence an automated in-house developed microglia segmentation analysis pipeline, we studied occurrence of iron-accumulating effect on...
Patients with congenital diaphragmatic hernia (CDH) suffer from severe pulmonary hypertension attributable to altered development of the vasculature, which is often resistant vasodilator therapy. Present treatment starts postnatally even though significant differences in vasculature are already present early during pregnancy. We examined effects prenatal phosphodiesterase-5 inhibitor sildenafil on vascular experimental CDH starting at a clinically relevant time. The well-established,...
To compare the effects of cold exposure and β3-adrenergic receptor agonist mirabegron on plasma lipids, energy expenditure brown adipose tissue (BAT) activity in South Asians versus Europids.Ten lean Dutch Asian (aged 18-30 years; body mass index [BMI] 18-25 kg/m2 ) 10 age- BMI-matched Europid men participated a randomized, double-blinded, cross-over study consisting three interventions: short-term (~ 2 hours) exposure, (200 mg one dose p.o.) placebo. Before after each intervention, we...
Segmentation and tracking of cells in fluorescence microscopy image sequences is an important task many biological studies into cell migration as well intracellular dynamics. The growing size complexity data sets precludes manual analysis, calls for increasingly advanced automatic algorithms that are generic enough to be easily tunable different applications, yet robust deal with types strongly varying imaging conditions. Active-contour based have proven very suitable this purpose but still...
Abstract Motivation: Complete, accurate and reproducible analysis of intracellular foci from fluorescence microscopy image sequences live cells requires full automation all processing steps involved: cell segmentation tracking followed by pattern analysis. Integrated systems for this purpose are lacking. Results: Extending our previous work in tracking, we developed a new system performing fully automated fluorescent single cells. The was validated applying it to two common tasks: counting...
Progressive lung disease with early onset is the main cause of mortality and morbidity in cystic fibrosis patients. Here we report a reduction sphingosine-1-phosphate (S1P) unchallenged Cftrtm1EUR F508del CFTR mutant mice. This correlates enhanced infiltration by inducible nitric oxide synthase (iNOS)-expressing granulocytes, B cells, T cells. Furthermore, ratio macrophage-derived dendritic cells (MoDC) to conventional (cDC) higher mouse lung, consistent unprovoked inflammation. Oral...
The number of international benchmarking competitions is steadily increasing in various fields machine learning (ML) research and practice. So far, however, little known about the common practice as well bottlenecks faced by community tackling questions posed. To shed light on status quo algorithm development specific field biomedical imaging analysis, we designed an survey that was issued to all participants challenges conducted conjunction with IEEE ISBI 2021 MICCAI conferences (80 total)....
Patients with congenital diaphragmatic hernia (CDH) often suffer from severe pulmonary hypertension, and the choice of current vasodilator therapy is mostly based on trial error. Because vascular abnormalities are already present early during development, we performed a study to modulate these changes at an stage gestation. Pregnant Sprague-Dawley rats were treated nitrofen day 9.5 gestation (E9.5) induce CDH in offspring, subsequently, phosphodiesterase-5 inhibitor sildenafil and/or novel...
Deep-learning algorithms for cell segmentation typically require large data sets with high-quality annotations to be trained with. However, the annotation cost obtaining such may prove prohibitively expensive. Our work aims reduce time necessary create of images by using a relatively small well-annotated set training convolutional neural network upgrade lower-quality annotations, produced at lower costs. We investigate performance our solution when upgrading quality labels affected three...
Magnetic resonance imaging (MRI) has become increasingly important in ischemic stroke experiments mice, especially because it enables longitudinal studies. Still, quantitative analysis of MRI data remains challenging mainly segmentation mouse brain lesions heavily relies on time-consuming manual tracing and thresholding techniques. Therefore, the present study, a fully automated approach was developed to analyze for quantification lesion volume progression brain. We level-set-based algorithm...
Aim: Magnetic resonance imaging (MRI) is increasingly being used to evaluate brown adipose tissue (BAT) function. Reports on the extent and direction of cold-induced changes in MRI fat fraction estimated BAT volume vary between studies. Here, we aimed explore effect different threshold ranges outcomes measured by MRI. Moreover, investigate cold exposure mass energy content. Methods: The effects at thresholding levels were analyzed supraclavicular depot nine adult males. data reconstructed,...
Purpose: To develop and validate a method for improving image resolution of late gadolinium-enhanced (LGE) magnetic resonance imaging (MRI) accurate assessment myocardial scar. Materials Methods:In cohort 37 postinfarction patients, LGE was performed prior to ventricular tachycardia catheter ablation therapy at 1.5T.A superresolution reconstruction (SRR) technique applied the three anisotropic views: short-axis (SA), two-chamber, four-chamber, reconstruct single isotropic volume.For...
Background In this study we set out to investigate the clinically observed relationship between chronic obstructive pulmonary disease (COPD) and aortic aneurysms. We tested hypothesis that an inherited deficiency of connective tissue might play a role in combined development emphysema vascular disease. Methods first determined prevalence clinical cohort aneurysms patients arterial occlusive patients. Subsequently, used approach comprising pathological, functional, molecular imaging,...