9 research outputs found
"MASSIVE" Brain Dataset: Multiple Acquisitions for Standardization of Structural Imaging Validation and Evaluation
PURPOSE: In this work, we present the MASSIVE (Multiple Acquisitions for Standardization of Structural Imaging Validation and Evaluation) brain dataset of a single healthy subject, which is intended to facilitate diffusion MRI (dMRI) modeling and methodology development. METHODS: MRI data of one healthy subject (female, 25 years) were acquired on a clinical 3 Tesla system (Philips Achieva) with an eight-channel head coil. In total, the subject was scanned on 18 different occasions with a total acquisition time of 22.5 h. The dMRI data were acquired with an isotropic resolution of 2.5 mm(3) and distributed over five shells with b-values up to 4000 s/mm(2) and two Cartesian grids with b-values up to 9000 s/mm(2) . RESULTS: The final dataset consists of 8000 dMRI volumes, corresponding B0 field maps and noise maps for subsets of the dMRI scans, and ten three-dimensional FLAIR, T1 -, and T2 -weighted scans. The average signal-to-noise-ratio of the non-diffusion-weighted images was roughly 35. CONCLUSION: This unique set of in vivo MRI data will provide a robust framework to evaluate novel diffusion processing techniques and to reliably compare different approaches for diffusion modeling. The MASSIVE dataset is made publically available (both unprocessed and processed) on www.massive-data.org. Magn Reson Med, 2016
Simultaneous adaptive smoothing of relaxometry and quantitative magnetization transfer mapping
Attempts for in-vivo histology require a high spatial resolution that comes with the price of a decreased signal-to-noise ratio. We present a novel iterative and multi-scale smoothing method for quantitative Magnetic Resonance Imaging (MRI) data that yield proton density, apparent transverse and longitudinal relaxation, and magnetization transfer maps. The method is based on the propagation-separation approach. The adaptivity of the procedure avoids the inherent bias from blurring subtle features in the calculated maps that is common for non-adaptive smoothing approaches. The characteristics of the methods were evaluated on a high-resolution data set (500 ÎĽ isotropic) from a single subject and quantified on data from a multi-subject study. The results show that the adaptive method is able to increase the signal-to-noise ratio in the calculated quantitative maps while largely avoiding the bias that is otherwise introduced by spatially blurring values across tissue borders. As a consequence, it preserves the intensity contrast between white and gray matter and the thin cortical ribbon
Adaptive smoothing of multi-shell diffusion-weighted magnetic resonance data by msPOAS
In this article we present a noise reduction method (msPOAS) for
multi-shell diffusionweighted magnetic resonance data. To our knowledge, this
is the first smoothing method which allows simultaneous smoothing of all
q-shells. It is applied directly to the diffusion weighted data and
consequently allows subsequent analysis by any model. Due to its adaptivity,
the procedure avoids blurring of the inherent structures and preserves
discontinuities. MsPOAS extends the recently developed positionorientation
adaptive smoothing (POAS) procedure to multi-shell experiments. At the same
time it considerably simplifies and accelerates the calculations. The
behavior of the algorithm msPOAS is evaluated on diffusion-weighted data
measured on a single shell and on multiple shells
Adaptive smoothing of multi-shell diffusion-weighted magnetic resonance data by msPOAS
In this article we present a noise reduction method (msPOAS) for multi-shell diffusion-weighted magnetic resonance data. To our knowledge, this is the first smoothing method which allows simultaneous smoothing of all q-shells. It is applied directly to the diffusion weighted data and consequently allows subsequent analysis by any model. Due to its adaptivity, the procedure avoids blurring of the inherent structures and preserves discontinuities. MsPOAS extends the recently developed position-orientation adaptive smoothing (POAS) procedure to multi-shell experiments. At the same time it considerably simplifies and accelerates the calculations. The behavior of the algorithm msPOAS is evaluated on diffusion-weighted data measured on a single shell and on multiple shells
Adaptive smoothing of multi-shell diffusion-weighted magnetic resonance data by msPOAS
In this article we present a noise reduction method (msPOAS) for multi-shell diffusion-weighted magnetic resonance data. To our knowledge, this is the first smoothing method which allows simultaneous smoothing of all q-shells. It is applied directly to the diffusion weighted data and consequently allows subsequent analysis by any model. Due to its adaptivity, the procedure avoids blurring of the inherent structures and preserves discontinuities. MsPOAS extends the recently developed position-orientation adaptive smoothing (POAS) procedure to multi-shell experiments. At the same time it considerably simplifies and accelerates the calculations. The behavior of the algorithm msPOAS is evaluated on diffusion-weighted data measured on a single shell and on multiple shells
The Propagation-Separation Approach
Lokal parametrische Modelle werden häufig im Kontext der nichtparametrischen Schätzung verwendet. Bei einer punktweisen Schätzung der Zielfunktion können die parametrischen Umgebungen mithilfe von Gewichten beschrieben werden, die entweder von den Designpunkten oder (zusätzlich) von den Beobachtungen abhängen. Der Vergleich von verrauschten Beobachtungen in einzelnen Punkten leidet allerdings unter einem Mangel an Robustheit. Der Propagations-Separations-Ansatz von Polzehl und Spokoiny [2006] verwendet daher einen Multiskalen-Ansatz mit iterativ aktualisierten Gewichten. Wir präsentieren hier eine theoretische Studie und numerische Resultate, die ein besseres Verständnis des Verfahrens ermöglichen. Zu diesem Zweck definieren und untersuchen wir eine neue Strategie für die Wahl des entscheidenden Parameters des Verfahrens, der Adaptationsbandweite. Insbesondere untersuchen wir ihre Variabilität in Abhängigkeit von der unbekannten Zielfunktion. Unsere Resultate rechtfertigen eine Wahl, die unabhängig von den jeweils vorliegenden Beobachtungen ist. Die neue Parameterwahl liefert für stückweise konstante und stückweise beschränkte Funktionen theoretische Beweise der Haupteigenschaften des Algorithmus. Für den Fall eines falsch spezifizierten Modells führen wir eine spezielle Stufenfunktion ein und weisen eine punktweise Fehlerschranke im Vergleich zum Schätzer des Algorithmus nach. Des Weiteren entwickeln wir eine neue Methode zur Entrauschung von diffusionsgewichteten Magnetresonanzdaten. Unser neues Verfahren (ms)POAS basiert auf einer speziellen Beschreibung der Daten, die eine zeitgleiche Glättung bezüglich der gemessenen Positionen und der Richtungen der verwendeten Diffusionsgradienten ermöglicht. Für den kombinierten Messraum schlagen wir zwei Distanzfunktionen vor, deren Eignung wir mithilfe eines differentialgeometrischen Ansatzes nachweisen. Schließlich demonstrieren wir das große Potential von (ms)POAS auf simulierten und experimentellen Daten.In statistics, nonparametric estimation is often based on local parametric modeling. For pointwise estimation of the target function, the parametric neighborhoods can be described by weights that depend on design points or on observations. As it turned out, the comparison of noisy observations at single points suffers from a lack of robustness. The Propagation-Separation Approach by Polzehl and Spokoiny [2006] overcomes this problem by using a multiscale approach with iteratively updated weights. The method has been successfully applied to a large variety of statistical problems. Here, we present a theoretical study and numerical results, which provide a better understanding of this versatile procedure. For this purpose, we introduce and analyse a novel strategy for the choice of the crucial parameter of the algorithm, namely the adaptation bandwidth. In particular, we study its variability with respect to the unknown target function. This justifies a choice independent of the data at hand. For piecewise constant and piecewise bounded functions, this choice enables theoretical proofs of the main heuristic properties of the algorithm. Additionally, we consider the case of a misspecified model. Here, we introduce a specific step function, and we establish a pointwise error bound between this function and the corresponding estimates of the Propagation-Separation Approach. Finally, we develop a method for the denoising of diffusion-weighted magnetic resonance data, which is based on the Propagation-Separation Approach. Our new procedure, called (ms)POAS, relies on a specific description of the data, which enables simultaneous smoothing in the measured positions and with respect to the directions of the applied diffusion-weighting magnetic field gradients. We define and justify two distance functions on the combined measurement space, where we follow a differential geometric approach. We demonstrate the capability of (ms)POAS on simulated and experimental data
Structure Tensor Informed Fiber Tractography (STIFT) by combining gradient echo MRI and diffusion weighted imaging
Structural connectivity research in the human brain in vivo relies heavily on fiber tractography in diffusion-weighted MRI (DWI). The accurate mapping of white matter pathways would gain from images with a higher resolution than the typical ~ 2 mm isotropic DWI voxel size. Recently, high field gradient echo MRI (GE) has attracted considerable attention for its detailed anatomical contrast even within the white and gray matter. Susceptibility differences between various fiber bundles give a contrast that might provide a useful representation of white matter architecture complementary to that offered by DWI.\ud
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In this paper, Structure Tensor Informed Fiber Tractography (STIFT) is proposed as a method to combine DWI and GE. A data-adaptive structure tensor is calculated from the GE image to describe the morphology of fiber bundles. The structure tensor is incorporated in a tractography algorithm to modify the DWI-based tracking direction according to the contrast in the GE image.\ud
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This GE structure tensor was shown to be informative for tractography. From closely spaced seedpoints (0.5 mm) on both sides of the border of 1) the optic radiation and inferior longitudinal fasciculus 2) the cingulum and corpus callosum, STIFT fiber bundles were clearly separated in white matter and terminated in the anatomically correct areas. Reconstruction of the optic radiation with STIFT showed a larger anterior extent of Meyer's loop compared to a standard tractography alternative. STIFT in multifiber voxels yielded a reduction in crossing-over of streamlines from the cingulum to the adjacent corpus callosum, while tracking through the fiber crossings of the centrum semiovale was unaffected.\ud
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The STIFT method improves the anatomical accuracy of tractography of various fiber tracts, such as the optic radiation and cingulum. Furthermore, it has been demonstrated that STIFT can differentiate between kissing and crossing fiber configurations. Future investigations are required to establish the applicability in more white matter pathways\u