- document
-
Kok, P. (author), Dijkstra, J. (author), Botha, C.P. (author), Post, F.H. (author), Kaijzel, E. (author), Que, I. (author), Löwik, C.W.G.M. (author), Reiber, J.H.C. (author), Lelieveldt, B.P.F. (author)This paper explores new methods to visualize and fuse multi-2D bioluminescence imaging (BLI) data with structural imaging modalities such as micro CT and MR. A geometric, back-projection-based 3D reconstruction for superficial lesions from multi-2D BLI data is presented, enabling a coarse estimate of the 3D source envelopes from the multi-2D BLI...conference paper 2007
- document
-
Baiker, M. (author), Vastenhouw, B. (author), Branderhorst, W. (author), Reiber, J.H.C. (author), Beekman, F. (author), Lelieveldt, B.P.F. (author)Highly focused Micro-SPECT scanners enable the acquisition of functional small animal data with very high-resolution. To acquire a maximum of emitted photons from a specific structure of interest and at the same time minimize the required acquisition time, typically only a small subvolume of the animal is scanned that contains the organs of...conference paper 2009
- document
-
Baka, N. (author), Milles, J. (author), Hendriks, E.A. (author), Suinesiaputra, A. (author), Jerosh Herold, M. (author), Reiber, J.H.C. (author), Lelieveldt, B.P.F. (author)This work investigates knowledge driven segmentation of cardiac MR perfusion sequences. We build upon previous work on multi-band AAMs to integrate into the segmentation both spatial priors about myocardial shape as well as temporal priors about characteristic perfusion patterns. Different temporal and spatial features are developed without a...conference paper 2008
- document
- Baka, N. (author), Niessen, W.J. (author), Kaptein, B.L. (author), Van Walsum, T. (author), Ferrarini, L. (author), Reiber, J.H.C. (author), Lelieveldt, B.P.F. (author) conference paper 2010
- document
-
Kirisli, H.A. (author), Gupta, V. (author), Kirschbaum, S. (author), Neefjes, L. (author), Van Geuns, R.J. (author), Mollet, N. (author), Lelieveldt, B.P.F. (author), Reiber, J.H.C. (author), Van Walsum, T. (author), Niessen, W.J. (author)Cardiac magnetic resonance perfusion imaging (CMR) and computed tomography angiography (CTA) are widely used to assess heart disease. CMR is used to measure the global and regional myocardial function and to evaluate the presence of ischemia; CTA is used for diagnosing coronary artery disease, such as coronary stenoses. Nowadays, the hemodynamic...conference paper 2011
- document
-
Vieth, A. (author), Lelieveldt, B.P.F. (author), Eisemann, E. (author), Vilanova, Anna (author), Höllt, T. (author)High-dimensional images (i.e., with many attributes per pixel) are commonly acquired in many domains, such as geosciences or systems biology. The spatial and attribute information of such data are typically explored separately, e.g., by using coordinated views of an image representation and a low-dimensional embedding of the high-dimensional...conference paper 2023
- document
-
Basu, S. (author), Eggermont, Jeroen (author), Kroes, Thomas (author), Jorstad, Nikolas (author), Bakken, Trygve (author), Lein, Ed (author), Lelieveldt, B.P.F. (author), Höllt, T. (author)With the rapid advances in single-cell sequencing technologies, novel types of studies into the cell-type makeup of the brain have become possible. Biologists often analyze large and complex single-cell transcriptomic datasets to enhance knowledge of the intricate features of cellular and molecular tissue organization. A particular area of...conference paper 2023
- document
-
Popa, A. (author), Gabrieli, F. (author), Kroes, T. (author), Krekeler, A. (author), Alfeld, M.W.E.M. (author), Lelieveldt, B.P.F. (author), Eisemann, E. (author), Höllt, T. (author)Reflectance Imaging Spectroscopy (RIS) is a hyperspectral imaging technique used for investigating the molecular composition of materials. It can help identify pigments used in a painting, which are relevant information for art conservation and history. For every scanned pixel, a reflectance spectrum is obtained and domain experts look for pure...conference paper 2022
- document
-
Vieth, A. (author), Vilanova, A. (author), Lelieveldt, B.P.F. (author), Eisemann, E. (author), Höllt, T. (author)High-dimensional imaging is becoming increasingly relevant in many fields from astronomy and cultural heritage to systems biology. Visual exploration of such high-dimensional data is commonly facilitated by dimensionality reduction. However, common dimensionality reduction methods do not include spatial information present in images, such as...conference paper 2022
- document
-
Liu, Shengnan (author), Eggermont, Jeroen (author), Wolterbeek, Ron (author), Lelieveldt, B.P.F. (author), Dijkstra, J (author)Intravascular optical coherence tomography (IVOCT) is an intravascular imaging modality which enables the visualization arterial structures at the micro-structural level. The interpretations of these structures is mainly on the basis of relative image intensities. However, even for homogeneous tissue light intensities can differ. In this study...conference paper 2016
- document
-
Mengler, L. (author), Khmelinskii, A. (author), Diedenhofen, M. (author), Po, C. (author), Staring, M. (author), Lelieveldt, B.P.F. (author), Hoehn, M. (author)Longitudinal studies on brain pathology and assessment of therapeutic strategies rely on a fully mature adult brain to exclude confounds of cerebral developmental changes. Thus, knowledge about onset of adulthood is indispensable for discrimination of developmental phase and adulthood. We have performed a high-resolution longitudinal MRI study...journal article 2013
- document
-
Mahfouz, A.M.E.T.A. (author), Van de Giessen, M. (author), Van der Maaten, L.J.P. (author), Huisman, S.M.H. (author), Reinders, M.J.T. (author), Hawrylycz, M.J. (author), Lelieveldt, B.P.F. (author)The Allen Brain Atlases enable the study of spatially resolved, genome-wide gene expression patterns across the mammalian brain. Several explorative studies have applied linear dimensionality reduction methods such as Principal Component Analysis (PCA) and classical Multi-Dimensional Scaling (cMDS) to gain insight into the spatial organization...journal article 2014
- document
-
Mahfouz, A. (author), Ziats, M.N. (author), Rennert, O.M. (author), Lelieveldt, B.P.F. (author), Reinders, M.J.T. (author)Autism spectrum disorder (ASD) is a neurodevelopmental syndrome known to have a significant but complex genetic etiology. Hundreds of diverse genes have been implicated in ASD; yet understanding how many genes, each with disparate function, can all be linked to a single clinical phenotype remains unclear. We hypothesized that understanding...journal article 2015
- document
-
Fast parallel image registration on CPU and GPU for diagnostic classification of Alzheimer's diseaseShamonin, D.P. (author), Bron, E.E. (author), Lelieveldt, B.P.F. (author), Smits, M. (author), Klein, S. (author), Staring, M. (author)Nonrigid image registration is an important, but time-consuming task in medical image analysis. In typical neuroimaging studies, multiple image registrations are performed, i.e., for atlas-based segmentation or template construction. Faster image registration routines would therefore be beneficial. In this paper we explore acceleration of the...journal article 2014
- document
-
ElBaz, M.S. (author), Calkoen, E. (author), Westenberg, J.J. (author), Lelieveldt, B.P.F. (author), Roest, A. (author), Van der Geest, R.J. (author)Poster presentation.journal article 2014
- document
-
Khmelinskii, A. (author), Baiker, M. (author), Kaijzel, E.L. (author), Chen, J. (author), Reiber, J.H.C. (author), Lelieveldt, B.P.F. (author)Purpose Using three publicly available small-animal atlases (Sprague–Dawley rat, MOBY, and Digimouse), we built three articulated atlases and present several applications in the scope of molecular imaging. Procedures Major bones/bone groups were manually segmented for each atlas skeleton. Then, a kinematic model for each atlas was built: each...journal article 2010
- document
-
Elbaz, M.S.M. (author), Calkoen, E.E. (author), Westenberg, J.J.M. (author), Lelieveldt, B.P.F. (author), Roest, A.A.W. (author), Van der Geest, R.J. (author)Background LV diastolic vortex formation has been suggested to critically contribute to efficient blood pumping function, while altered vortex formation has been associated with LV pathologies. Therefore, quantitative characterization of vortex flow might provide a novel objective tool for evaluating LV function. The objectives of this study...journal article 2014
- document
-
Khmelinskii, A. (author), Groen, H.C. (author), De Jong, M. (author), Lelieveldt, B.P.F. (author)Whole-body SPECT small animal imaging is used to study cancer, and plays an important role in the development of new drugs. Comparing and exploring whole-body datasets can be a difficult and time-consuming task due to the inherent heterogeneity of the data (high volume/throughput, multi-modality, postural and positioning variability). The goal...journal article 2012
- document
-
Dzyubachyk, O. (author), Khmelinskii, A. (author), Plenge, E. (author), Kok, P. (author), Snoeks, T.J. (author), Poot, D.H. (author), Löwik, C.W. (author), Botha, C.P. (author), Niessen, W.J. (author), Van der Weerd, L. (author), Meijering, E. (author), Lelieveldt, B.P.F. (author)In small animal imaging studies, when the locations of the micro-structures of interest are unknown a priori, there is a simultaneous need for full-body coverage and high resolution. In MRI, additional requirements to image contrast and acquisition time will often make it impossible to acquire such images directly. Recently, a resolution...journal article 2014
- document
-
Babaei, S. (author), Mahfouz, A.M.E.T.A. (author), Hulsman, M. (author), Lelieveldt, B.P.F. (author), De Ridder, J. (author), Reinders, M.J.T. (author)The three dimensional conformation of the genome in the cell nucleus influences important biological processes such as gene expression regulation. Recent studies have shown a strong correlation between chromatin interactions and gene co-expression. However, predicting gene co-expression from frequent long-range chromatin interactions remains...journal article 2015