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Progression along data-driven disease timelines is predictive of Alzheimer's disease in a population-based cohort

Venkatraghavan, Vikram (author), Vinke, Elisabeth J. (author), Bron, Esther E. (author), Niessen, W.J. (author), Arfan Ikram, M. (author), Klein, S. (author), Vernooij, Meike W. (author)

Data-driven disease progression models have provided important insight into the timeline of brain changes in AD phenotypes. However, their utility in predicting the progression of pre-symptomatic AD in a population-based setting has not yet been investigated. In this study, we investigated if the disease timelines constructed in a case...

journal article 2021

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Differences Between MR Brain Region Segmentation Methods: Impact on Single-Subject Analysis

Huizinga, W. (author), Poot, D.H.J. (author), Vinke, E. J. (author), Wenzel, F. (author), Bron, E. E. (author), Ikram, M. A. (author), Niessen, W.J. (author), Vernooij, M.N.A. (author), Klein, S. (author)

For the segmentation of magnetic resonance brain images into anatomical regions, numerous fully automated methods have been proposed and compared to reference segmentations obtained manually. However, systematic differences might exist between the resulting segmentations, depending on the segmentation method and underlying brain atlas. This...

journal article 2021

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Recurrent inference machines as inverse problem solvers for MR relaxometry

Sabidussi, E. R. (author), Klein, S. (author), Caan, M. W.A. (author), Bazrafkan, S. (author), den Dekker, A. J. (author), Sijbers, J. (author), Niessen, W.J. (author), Poot, D.H.J. (author)

In this paper, we propose the use of Recurrent Inference Machines (RIMs) to perform T₁ and T₂ mapping. The RIM is a neural network framework that learns an iterative inference process based on the signal model, similar to conventional statistical methods for quantitative MRI (QMRI), such as the Maximum Likelihood...

journal article 2021

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Analyzing the effect of APOE on Alzheimer's disease progression using an event-based model for stratified populations

Venkatraghavan, Vikram (author), Klein, S. (author), Fani, Lana (author), Ham, Leontine S. (author), Vrooman, Henri (author), Ikram, M. Kamran (author), Niessen, W.J. (author), Bron, Esther E. (author)

Alzheimer's disease (AD) is the most common form of dementia and is phenotypically heterogeneous. APOE is a triallelic gene which correlates with phenotypic heterogeneity in AD. In this work, we determined the effect of APOE alleles on the disease progression timeline of AD using a discriminative event-based model (DEBM). Since DEBM is a data...

journal article 2020

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Predicting Global Cognitive Decline in the General Population Using the Disease State Index

Cremers, Lotte G.M. (author), Huizinga, Wyke (author), Niessen, W.J. (author), Krestin, Gabriel P. (author), Poot, D.H.J. (author), Ikram, M. Arfan (author), Lötjönen, Jyrki (author), Klein, S. (author), Vernooij, Meike W. (author)

Background: Identifying persons at risk for cognitive decline may aid in early detection of persons at risk of dementia and to select those that would benefit most from therapeutic or preventive measures for dementia. Objective: In this study we aimed to validate whether cognitive decline in the general population can be predicted with...

journal article 2020

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An Efficient Method for Multi-Parameter Mapping in Quantitative MRI Using B-Spline Interpolation

van Valenberg, W. (author), Klein, S. (author), Vos, F.M. (author), Koolstra, Kirsten (author), van Vliet, L.J. (author), Poot, D.H.J. (author)

Quantitative MRI methods that estimate multiple physical parameters simultaneously often require the fitting of a computational complex signal model defined through the Bloch equations. Repeated Bloch simulations can be avoided by matching the measured signal with a precomputed signal dictionary on a discrete parameter grid (i.e. lookup table...

journal article 2020

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Differential diagnosis and mutation stratification of desmoid-type fibromatosis on MRI using radiomics

Timbergen, Milea J.M. (author), Starmans, Martijn P.A. (author), Padmos, Guillaume A. (author), Grünhagen, Dirk J. (author), van Leenders, Geert J.L.H. (author), Hanff, D. F. (author), Niessen, W.J. (author), Klein, S. (author), Visser, J.J. (author)

Purpose: Diagnosing desmoid-type fibromatosis (DTF) requires an invasive tissue biopsy with β-catenin staining and CTNNB1 mutational analysis, and is challenging due to its rarity. The aim of this study was to evaluate radiomics for distinguishing DTF from soft tissue sarcomas (STS), and in DTF, for predicting the CTNNB1 mutation types....

journal article 2020

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Disease progression timeline estimation for Alzheimer's disease using discriminative event based modeling

Venkatraghavan, Vikram (author), Bron, Esther E. (author), Niessen, W.J. (author), Klein, S. (author)

Alzheimer's Disease (AD) is characterized by a cascade of biomarkers becoming abnormal, the pathophysiology of which is very complex and largely unknown. Event-based modeling (EBM) is a data-driven technique to estimate the sequence in which biomarkers for a disease become abnormal based on cross-sectional data. It can help in understanding...

journal article 2019

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Trajectories of imaging markers in brain aging: the Rotterdam Study

Vinke, Elisabeth J. (author), de Groot, Marius (author), Venkatraghavan, Vikram (author), Klein, S. (author), Niessen, W.J. (author), Ikram, M. Arfan (author), Vernooij, Meike W. (author)

With aging, the brain undergoes several structural changes. These changes reflect the normal aging process and are therefore not necessarily pathologic. In fact, better understanding of these normal changes is an important cornerstone to also disentangle pathologic changes. Several studies have investigated normal brain aging, both cross...

journal article 2018

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Intrasubject multimodal groupwise registration with the conditional template entropy

Polfliet, Mathias (author), Klein, S. (author), Huizinga, W. (author), Paulides, Margarethus M. (author), Niessen, W.J. (author), Vandemeulebroucke, Jef (author)

Image registration is an important task in medical image analysis. Whereas most methods are designed for the registration of two images (pairwise registration), there is an increasing interest in simultaneously aligning more than two images using groupwise registration. Multimodal registration in a groupwise setting remains difficult, due to...

journal article 2018

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Dynamic contrast-enhanced MRI of the patellar bone: How to quantify perfusion

Poot, D.H.J. (author), van der Heijden, R.A.J. (author), van Middelkoop, Marienke (author), Oei, Edwin H.G. (author), Klein, S. (author)

Purpose: To identify the optimal combination of pharmacokinetic model and arterial input function (AIF) for quantitative analysis of blood perfusion in the patellar bone using dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI). Materials and Methods: This method design study used a random subset of five control subjects from an...

journal article 2018

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A spatio-temporal reference model of the aging brain

huizinga, w (author), Poot, D.H.J. (author), Vernooij, Meike W. (author), Roshchupkin, G.V. (author), bron, E.E. (author), Ikram, M.A. (author), Rueckert, D. (author), Niessen, W.J. (author), Klein, S. (author)

Both normal aging and neurodegenerative disorders such as Alzheimer's disease (AD) cause morphological changes of the brain. It is generally difficult to distinguish these two causes of morphological change by visual inspection of magnetic resonance (MR) images. To facilitate making this distinction and thus aid the diagnosis of...

journal article 2018

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Classification of malignant and benign liver tumors using a radiomics approach

Starmans, Martijn P.A. (author), Miclea, Razvan L. (author), van der Voort, S.R. (author), Niessen, W.J. (author), Thomeer, Maarten G. (author), Klein, S. (author)

Correct diagnosis of the liver tumor phenotype is crucial for treatment planning, especially the distinction between malignant and benign lesions. Clinical practice includes manual scoring of the tumors on Magnetic Resonance (MR) images by a radiologist. As this is challenging and subjective, it is often followed by a biopsy. In this study,...

conference paper 2018

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Groupwise image registration based on a total correlation dissimilarity measure for quantitative MRI and dynamic imaging data

Guyader, Jean Marie (author), Huizinga, W. (author), Poot, D.H.J. (author), van Kranenburg, Matthijs (author), Uitterdijk, André (author), Niessen, W.J. (author), Klein, S. (author)

The most widespread technique used to register sets of medical images consists of selecting one image as fixed reference, to which all remaining images are successively registered. This pairwise scheme requires one optimization procedure per pair of images to register. Pairwise mutual information is a common dissimilarity measure applied to a...

journal article 2018

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Blood perfusion of patellar bone measured by dynamic contrast-enhanced MRI in patients with patellofemoral pain: A case–control study

van der Heijden, R.A.J. (author), Poot, D.H.J. (author), Ekinci, Melek (author), Kotek, Gyula (author), van Veldhoven, Peter L.J. (author), Klein, S. (author), Verhaar, Jan A.N. (author), Krestin, Gabriel P. (author), Bierma-Zeinstra, Sita M.A. (author), van Middelkoop, Marienke (author), Oei, Edwin H.G. (author)

Background: Altered perfusion might play an important role in the pathophysiology of patellofemoral pain (PFP), a common knee complaint with unclear pathophysiology. Purpose: To investigate differences in dynamic contrast-enhanced (DCE)-MRI perfusion parameters between patients with PFP and healthy control subjects. Population/Subjects...

journal article 2018

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Stochastic optimization with randomized smoothing for image registration

Sun, Wei (author), Poot, D.H.J. (author), Smal, Ihor (author), Yang, Xuan (author), Niessen, W.J. (author), Klein, S. (author)

Image registration is typically formulated as an optimization process, which aims to find the optimal transformation parameters of a given transformation model by minimizing a cost function. Local minima may exist in the optimization landscape, which could hamper the optimization process. To eliminate local minima, smoothing the cost function...

journal article 2017

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Laplacian eigenmaps for multimodal groupwise image registration

Polfliet, Mathias (author), Klein, S. (author), Niessen, W.J. (author), Vandemeulebroucke, Jef (author)

Multimodal groupwise registration has been of growing interest to the image processing community due to developments in scanner technologies (e.g. multiparametric MRI, DCE-CT or PET-MR) that increased both the number of modalities and number of images under consideration. In this work a novel methodology is presented for multimodal groupwise...

conference paper 2017

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Total Correlation-Based Groupwise Image Registration for Quantitative MRI

Guyader, Jean Marie (author), Huizinga, W. (author), Fortunati, Valerio (author), Poot, D.H.J. (author), Kranenburg, Matthijs Van (author), Veenland, J.F. (author), Paulides, Margarethus M. (author), Niessen, W.J. (author), Klein, S. (author)

In quantitative magnetic resonance imaging (qMRI), quantitative tissue properties can be estimated by fitting a signal model to the voxel intensities of a series of images acquired with different settings. To obtain reliable quantitative measures, it is necessary that the qMRI images are spatially aligned so that a given voxel corresponds in...

conference paper 2016

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Multiparametric computer-aided differential diagnosis of Alzheimer’s disease and frontotemporal dementia using structural and advanced MRI

Bron, Esther E. (author), Smits, Marion (author), Papma, Janne M. (author), Steketee, Rebecca M E (author), Meijboom, Rozanna (author), De Groot, Marius (author), van Swieten, John C. (author), Niessen, W.J. (author), Klein, S. (author)

Objectives: To investigate the added diagnostic value of arterial spin labelling (ASL) and diffusion tensor imaging (DTI) to structural MRI for computer-aided classification of Alzheimer's disease (AD), frontotemporal dementia (FTD), and controls. Methods: This retrospective study used MRI data from 24 early-onset AD and 33 early-onset FTD...

journal article 2016

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Modeling the brain morphology distribution in the general aging population

Huizinga, W. (author), Poot, D.H.J. (author), Roshchupkin, G. (author), Bron, E. E. (author), Ikram, M. A. (author), Vernooij, M. W. (author), Rueckert, D. (author), Niessen, W.J. (author), Klein, S. (author)

Both normal aging and neurodegenerative diseases such as Alzheimer's disease cause morphological changes of the brain. To better distinguish between normal and abnormal cases, it is necessary to model changes in brain morphology owing to normal aging. To this end, we developed a method for analyzing and visualizing these changes for the...

conference paper 2016