A5085479465- Advanced Neuroimaging Techniques and Applications
- Functional Brain Connectivity Studies
- Cell Image Analysis Techniques
- Advanced MRI Techniques and Applications
- Molecular Biology Techniques and Applications
- Autism Spectrum Disorder Research
- Genetics and Neurodevelopmental Disorders
- Neural dynamics and brain function
- Medical Image Segmentation Techniques
- Congenital heart defects research
- Single-cell and spatial transcriptomics
- COVID-19 diagnosis using AI
- Epigenetics and DNA Methylation
- Cancer-related Molecular Pathways
- Distributed and Parallel Computing Systems
- Neurological disorders and treatments
- Neuroscience and Neuropharmacology Research
- Radiomics and Machine Learning in Medical Imaging
- Scientific Computing and Data Management
- Genomics and Rare Diseases
- Neurogenesis and neuroplasticity mechanisms
- Genomic variations and chromosomal abnormalities
- Advanced Neural Network Applications
- Genetics, Aging, and Longevity in Model Organisms
Amsterdam University Medical Centers
2022
University of Amsterdam
2022
Hospital for Sick Children
2012-2021
Classically, model-based segmentation procedures match magnetic resonance imaging (MRI) volumes to an expertly labeled atlas using nonlinear registration. The accuracy of these techniques are limited due biases, misregistration, and resampling error. Multi-atlas-based approaches used as a remedy involve matching each subject number manually templates. This approach yields numerous independent segmentations that fused voxel-by-voxel label-voting procedure. In this article, we demonstrate how...
Using neuroimaging technologies to elucidate the relationship between genotype and phenotype brain behavior will be a key contribution biomedical research in twenty-first century. Among many methods for analyzing data, image registration deserves particular attention due its wide range of applications. Finding strategies register together images analyze differences them can challenge, particularly given that different experimental designs require strategies. Moreover, writing software handle...
After more than a century of research, the mouse remains gold-standard model system, for it recapitulates human development and disease is quickly highly tractable to genetic manipulations. Fundamental power success using ability stage embryonic accurately. Past staging systems were limited by technologies day, such that only surface features, visible with light microscope, could be recognized used define stages. With advent high-throughput 3D imaging tools capture embryo morphology in...
This article describes a detailed set of protocols for mouse brain imaging using MRI. We focus primarily on measuring changes in neuroanatomy, and provide both instructions preparation details image acquisition, processing, statistics. Practical as well theoretical considerations are provided. © 2018 by John Wiley & Sons, Inc.
Koolen-de Vries syndrome (KdVS) is a multi-system disorder characterized by intellectual disability, friendly behavior, and congenital malformations. The caused either microdeletions in the 17q21.31 chromosomal region or variants KANSL1 gene. reciprocal microduplication associated with psychomotor delay, reduced social interaction. To investigate pathophysiology of microdeletion syndromes, we generated three mouse models: 1) deletion (Del/+); 2) duplication (Dup/+) syntenic region; 3)...
Purpose: Ensembles of convolutional neural networks (CNNs) often outperform a single CNN in medical image segmentation tasks, but inference is computationally more expensive and makes ensembles unattractive for some applications. We compared the performance differently constructed with CNNs derived from these using knowledge distillation, technique reducing footprint large models such as ensembles. Approach: investigated two different types ensembles, namely, diverse three architectures...
NMDA receptor dysfunction is central to the encephalopathies caused by missense mutations in subunit genes. Missense variants of GRIN1, GRIN2A, and GRIN2B cause similar syndromes with varying severity intellectual impairment, autism, epilepsy, motor dysfunction. To gain insight into possible biomarkers NMDAR hypofunction, we asked whether a loss-of-function variant Grin1 gene would structural changes brain that could be detected MRI. We also studied developmental trajectory these determine...
Advanced 3D imaging modalities, such as micro-computed tomography (micro-CT), have been incorporated into the high-throughput embryo pipeline of International Mouse Phenotyping Consortium (IMPC). This project generates large volumes raw data that cannot be immediately exploited without significant resources personnel and expertise. Thus, rapid automated annotation is crucial to ensure can integrated with other multi-dimensional phenotyping data. We present an computational mouse harnesses...
Background: The p63 gene is integral to the development of many body parts including limb, palate, teeth, and urogenital tract. Loss expression may alter developmental rate, which crucial normal morphogenesis. To validate a novel, unbiased embryo phenotyping software tool, we tested whether delayed contributes pathological phenotype mouse mutant (p63 ‐/‐ ). We quantified dysmorphology in embryos for universal growth delay relative wild‐type (WT) embryos. Fixed (n = 6; ) aged day (E) 15.5...
Abstract An organizational pattern seen in the brain, termed structural covariance , is statistical association of pairs brain regions their anatomical properties. These associations, measured across a population as covariances or correlations usually cortical thickness volume, are thought to reflect genetic and environmental underpinnings. Here, we examine biological basis volume mouse brain. We first examined large scale associations between region volumes using an atlas-based approach...
In recent years, the replicability of neuroimaging findings has become an important concern to research community. Neuroimaging pipelines consist myriad numerical procedures, which can have a cumulative effect on accuracy findings. To address this problem, we propose method for simulating artificial lesions in brain order estimate sensitivity and specificity lesion detection, using different automated corticometry pipelines. We applied versions two widely used (CIVET FreeSurfer), terms...