Diffeomorphic Registration Research Articles

Fast three-dimensional image generation for healthy brain aging using diffeomorphic registration.

Predicting brain aging can help in the early detection and prognosis of neurodegenerative diseases. Longitudinal cohorts of healthy subjects scanned through magnetic resonance imaging (MRI) have been essential to understand the structural brain changes due to aging. However, these cohorts suffer from missing data due to logistic issues in the recruitment of subjects. This paper proposes a methodology for filling up missing data in longitudinal cohorts with anatomically plausible images that capture the subject-specific aging process. The proposed methodology is developed within the framework of diffeomorphic registration. First, two novel modules are introduced within Synthmorph, a fast, state-of-the-art deep learning-based diffeomorphic registration method, to simulate the aging process between the first and last available MRI scan for each subject in three-dimensional (3D). The use of image registration also makes the generated images plausible by construction. Second, we used six image similarity measurements to rearrange the generated images to the specific age range. Finally, we estimated the age of every generated image by using the assumption of linear brain decay in healthy subjects. The methodology was evaluated on 2662 T1-weighted MRI scans from 796 healthy participants from 3 different longitudinal cohorts: Alzheimer's Disease Neuroimaging Initiative, Open Access Series of Imaging Studies-3, and Group of Neuropsychological Studies of the Canary Islands (GENIC). In total, we generated 7548 images to simulate the access of a scan per subject every 6 months in these cohorts. We evaluated the quality of the synthetic images using six quantitative measurements and a qualitative assessment by an experienced neuroradiologist with state-of-the-art results. The assumption of linear brain decay was accurate in these cohorts (R2 ∈[.924, .940]). The experimental results show that the proposed methodology can produce anatomically plausible aging predictions that can be used to enhance longitudinal datasets. Compared to deep learning-based generative methods, diffeomorphic registration is more likely to preserve the anatomy of the different structures of the brain, which makes it more appropriate for its use in clinical applications. The proposed methodology is able to efficiently simulate anatomically plausible 3D MRI scans of brain aging of healthy subjects from two images scanned at two different time points.

Multiscale Approach for Bounded Deformation Image Registration

Deformable image registration is a very important topic in the field of image processing. It is widely used in image fusion and shape analysis. Generally speaking, image registration models can be divided into two categories: smooth registration and non-smooth registration. During the last decades, many smooth registration models (i.e., diffeomorphic registration) were proposed. However, image with strong noise may lead to discontinuous deformation, which cannot be modelled by smooth registration. To simulate this kind of deformation, some non-smooth registration models were also proposed. However, numerical algorithms for these models are easily trapped into a local minimum because of the nonconvexity of the object functional. To overcome the local minimum of the object functional, we propose a multiscale approach for a non-smooth registration model: the bounded deformation (BD) model. The convergence of the approach is shown, and numerical tests are also performed to show the good performance of the proposed multiscale approach.

Dlung: Unsupervised Few-Shot Diffeomorphic Respiratory Motion Modeling.

Lung image registration plays an important role in lung analysis applications, such as respiratory motion modeling. Unsupervised learning-based image registration methods that can compute the deformation without the requirement of supervision attract much attention. However, it is noteworthy that they have two drawbacks: they do not handle the problem of limited data and do not guarantee diffeomorphic (topology-preserving) properties, especially when large deformation exists in lung scans. In this paper, we present an unsupervised few-shot learning-based diffeomorphic lung image registration, namely Dlung. We employ fine-tuning techniques to solve the problem of limited data and apply the scaling and squaring method to accomplish the diffeomorphic registration. Furthermore, atlas-based registration on spatio-temporal (4D) images is performed and thoroughly compared with baseline methods. Dlung achieves the highest accuracy with diffeomorphic properties. It constructs accurate and fast respiratory motion models with limited data. This research extends our knowledge of respiratory motion modeling.

Learning Deformable Image Registration From Optimization: Perspective, Modules, Bilevel Training and Beyond.

Conventional deformable registration methods aim at solving an optimization model carefully designed on image pairs and their computational costs are exceptionally high. In contrast, recent deep learning-based approaches can provide fast deformation estimation. These heuristic network architectures are fully data-driven and thus lack explicit geometric constraints which are indispensable to generate plausible deformations, e.g., topology-preserving. Moreover, these learning-based approaches typically pose hyper-parameter learning as a black-box problem and require considerable computational and human effort to perform many training runs. To tackle the aforementioned problems, we propose a new learning-based framework to optimize a diffeomorphic model via multi-scale propagation. Specifically, we introduce a generic optimization model to formulate diffeomorphic registration and develop a series of learnable architectures to obtain propagative updating in the coarse-to-fine feature space. Further, we propose a new bilevel self-tuned training strategy, allowing efficient search of task-specific hyper-parameters. This training strategy increases the flexibility to various types of data while reduces computational and human burdens. We conduct two groups of image registration experiments on 3D volume datasets including image-to-atlas registration on brain MRI data and image-to-image registration on liver CT data. Extensive results demonstrate the state-of-the-art performance of the proposed method with diffeomorphic guarantee and extreme efficiency. We also apply our framework to challenging multi-modal image registration, and investigate how our registration to support the down-streaming tasks for medical image analysis including multi-modal fusion and image segmentation.

Symmetric transformer-based network for unsupervised image registration

Medical image registration is a fundamental and critical task in medical image analysis. With the rapid development of deep learning, convolutional neural networks (CNNs) have dominated the medical image registration field. Due to the disadvantage of the local receptive field of CNNs, some recent registration methods have focused on using transformers for nonlocal registration. However, the standard transformer has a vast number of parameters and high computational complexity, which means that it can only be applied at the bottom of registration models. As a result, only coarse information is available at the lowest resolution, limiting the contribution of the transformer in these models. To address these challenges, we propose a convolution-based efficient multihead self-attention (CEMSA) block, which reduces the number of parameters of the traditional transformer and captures local spatial context information to reduce semantic ambiguity in the attention mechanism. Based on the proposed CEMSA, we present a novel symmetric transformer-based model (SymTrans). SymTrans employs the transformer blocks in the encoder and the decoder to model the long-range spatial cross-image relevance. We apply SymTrans to the displacement field and diffeomorphic registration. Experimental results show that our proposed method achieves state-of-the-art performance in image registration. Our code is publicly available at https://github.com/MingR-Ma/SymTrans.

DiffeoRaptor: diffeomorphic inter-modal image registration using RaPTOR.

Diffeomorphic image registration is essential in many medical imaging applications. Several registration algorithms of such type have been proposed, but primarily for intra-contrast alignment. Currently, efficient inter-modal/contrast diffeomorphic registration, which is vital in numerous applications, remains a challenging task. We proposed a novel inter-modal/contrast registration algorithm that leverages Robust PaTch-based cOrrelation Ratio metric to allow inter-modal/contrast image alignment and bandlimited geodesic shooting demonstrated in Fourier-Approximated Lie Algebras (FLASH) algorithm for fast diffeomorphic registration. The proposed algorithm, named DiffeoRaptor, was validated with three public databases for the tasks of brain and abdominal image registration while comparing the results against three state-of-the-art techniques, including FLASH, NiftyReg, and Symmetric image Normalization (SyN). Our results demonstrated that DiffeoRaptor offered comparable or better registration performance in terms of registration accuracy. Moreover, DiffeoRaptor produces smoother deformations than SyN in inter-modal and contrast registration. The code for DiffeoRaptor is publicly available at https://github.com/nimamasoumi/DiffeoRaptor .

RSegNet: A Joint Learning Framework for Deformable Registration and Segmentation

Medical image segmentation and registration are two tasks to analyze the anatomical structures in clinical research. Still, deep-learning solutions utilizing the connections between segmentation and registration remain underdiscovered. This article designs a joint learning framework named RSegNet that can realize concurrent deformable registration and segmentation by minimizing an integrated loss function, including three parts: diffeomorphic registration loss, segmentation similarity loss, and dual-consistency supervision loss. The probabilistic diffeomorphic registration branch could benefit from the auxiliary segmentations available from the segmentation branch to achieve anatomical consistency and better deformation regularity by dual-consistency supervision. Simultaneously, the segmentation performance could also be improved by data augmentation based on the registration with well-behaved diffeomorphic guarantees. Experiments on the human brain 3-D magnetic resonance images have been implemented to demonstrate the effectiveness of our approach. We trained and validated RSegNet with 1000 images and tested its performances on four public datasets, which shows that our method successfully yields concurrent improvements of both segmentation and registration compared with separately trained networks. Specifically, our method can increase the accuracy of segmentation and registration by 7.0% and 1.4%, respectively, in terms of Dice scores. <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">Note to Practitioners</i> —Registration and segmentation of medical images are two significant tasks in medical research and clinical application. However, most existing approaches consider these two tasks independently while neglecting the potential association between them. Therefore, we suggest a new approach that combines these two tasks into one joint deep learning framework, boosting registration, and segmentation performance by introducing dual-consistency supervision. Besides, our framework could generate outputs within 1 s by taking an affinely aligned medical image pair as input, which is suitable for time-critical requirements in a clinic. We tested it on four public datasets and achieved state-of-the-art performance to demonstrate the proposed method’s feasibility and robustness. Furthermore, our proposed RSegNet is a general learning framework suitable for various image modalities and anatomical structures. Hence, we expect our framework to serve as a practical clinical tool to speed up medical image analysis procedures and improve diagnostic accuracy.

Radiomic Deformation and Textural Heterogeneity (R-DepTH) Descriptor to Characterize Tumor Field Effect: Application to Survival Prediction in Glioblastoma.

The concept of tumor field effect implies that cancer is a systemic disease with its impact way beyond the visible tumor confines. For instance, in Glioblastoma (GBM), an aggressive brain tumor, the increase in intracranial pressure due to tumor burden often leads to brain herniation and poor outcomes. Our work is based on the rationale that highly aggressive tumors tend to grow uncontrollably, leading to pronounced biomechanical tissue deformations in the normal parenchyma, which when combined with local morphological differences in the tumor confines on MRI scans, will comprehensively capture tumor field effect. Specifically, we present an integrated MRI-based descriptor, radiomic-Deformation and Textural Heterogeneity (r-DepTH). This descriptor comprises measurements of the subtle perturbations in tissue deformations throughout the surrounding normal parenchyma due to mass effect. This involves non-rigidly aligning the patients’ MRI scans to a healthy atlas via diffeomorphic registration. The resulting inverse mapping is used to obtain the deformation field magnitudes in the normal parenchyma. These measurements are then combined with a 3D texture descriptor, Co-occurrence of Local Anisotropic Gradient Orientations (COLLAGE), which captures the morphological heterogeneity and infiltration within the tumor confines, on MRI scans. In this work, we extensively evaluated r-DepTH for survival risk-stratification on a total of 207 GBM cases from 3 different cohorts (Cohort 1 (n1 = 53), Cohort 2 (n2 = 75), and Cohort 3 (n3 = 79)), where each of these three cohorts was used as a training set for our model separately, and the other two cohorts were used for testing, independently, for each training experiment. When employing Cohort 1 for training, r-DepTH yielded Concordance indices (C-indices) of 0.7 and 0.65, hazard ratios (HR) and Confidence Intervals (CI) of 10 (6 – 19) and 5 (3 – 8) on Cohorts 2 and 3, respectively. Similarly, training on Cohort 2 yielded C-indices of 0.6 and 0.7, HR and CI of 1 (0.7 – 2) and 3 (2 – 5) on Cohorts 1 and 3, respectively. Finally, training on Cohort 3 yielded C-indices of 0.75 and 0.63, HR and CI of 24 (10 – 57) and 12 (6 – 21) on Cohorts 1 and 2, respectively. Our results show that r-DepTH descriptor may serve as a comprehensive and a robust MRI-based prognostic marker of disease aggressiveness and survival in solid tumors.

Weight metamorphosis of varifolds and the LDDMM-Fisher-Rao metric

This paper introduces and studies a metamorphosis framework for geometric measures known as varifolds, which extends the diffeomorphic registration model for objects such as curves, surfaces and measures by complementing diffeomorphic deformations with a transformation process on the varifold weights. We consider two classes of cost functionals to penalize those combined transformations, in particular the LDDMM-Fisher-Rao energy which, as we show, leads to a well-defined Riemannian metric on the space of varifolds with existence of corresponding geodesics. We further introduce relaxed formulations of the respective optimal control problems, study their well-posedness and derive optimality conditions for the solutions. From these, we propose a numerical approach to compute optimal metamorphoses between discrete varifolds and illustrate the interest of this model in the situation of partially missing data.

Partial Differential Equation-Constrained Diffeomorphic Registration from Sum of Squared Differences to Normalized Cross-Correlation, Normalized Gradient Fields, and Mutual Information: A Unifying Framework.

This work proposes a unifying framework for extending PDE-constrained Large Deformation Diffeomorphic Metric Mapping (PDE-LDDMM) with the sum of squared differences (SSD) to PDE-LDDMM with different image similarity metrics. We focused on the two best-performing variants of PDE-LDDMM with the spatial and band-limited parameterizations of diffeomorphisms. We derived the equations for gradient-descent and Gauss–Newton–Krylov (GNK) optimization with Normalized Cross-Correlation (NCC), its local version (lNCC), Normalized Gradient Fields (NGFs), and Mutual Information (MI). PDE-LDDMM with GNK was successfully implemented for NCC and lNCC, substantially improving the registration results of SSD. For these metrics, GNK optimization outperformed gradient-descent. However, for NGFs, GNK optimization was not able to overpass the performance of gradient-descent. For MI, GNK optimization involved the product of huge dense matrices, requesting an unaffordable memory load. The extensive evaluation reported the band-limited version of PDE-LDDMM based on the deformation state equation with NCC and lNCC image similarities among the best performing PDE-LDDMM methods. In comparison with benchmark deep learning-based methods, our proposal reached or surpassed the accuracy of the best-performing models. In NIREP16, several configurations of PDE-LDDMM outperformed ANTS-lNCC, the best benchmark method. Although NGFs and MI usually underperformed the other metrics in our evaluation, these metrics showed potentially competitive results in a multimodal deformable experiment. We believe that our proposed image similarity extension over PDE-LDDMM will promote the use of physically meaningful diffeomorphisms in a wide variety of clinical applications depending on deformable image registration.

End-to-End Deep Learning of Non-rigid Groupwise Registration and Reconstruction of Dynamic MRI.

Temporal correlation has been exploited for accelerated dynamic MRI reconstruction. Some methods have modeled inter-frame motion into the reconstruction process to produce temporally aligned image series and higher reconstruction quality. However, traditional motion-compensated approaches requiring iterative optimization of registration and reconstruction are time-consuming, while most deep learning-based methods neglect motion in the reconstruction process. We propose an unrolled deep learning framework with each iteration consisting of a groupwise diffeomorphic registration network (GRN) and a motion-augmented reconstruction network. Specifically, the whole dynamic sequence is registered at once to an implicit template which is used to generate a new set of dynamic images to efficiently exploit the full temporal information of the acquired data via the GRN. The generated dynamic sequence is then incorporated into the reconstruction network to augment the reconstruction performance. The registration and reconstruction networks are optimized in an end-to-end fashion for simultaneous motion estimation and reconstruction of dynamic images. The effectiveness of the proposed method is validated in highly accelerated cardiac cine MRI by comparing with other state-of-the-art approaches.

Measuring Strain in Diffusion-Weighted Data Using Tagged Magnetic Resonance Imaging.

Accurate strain measurement in a deforming organ has been essential in motion analysis using medical images. In recent years, internal tissue's in vivo motion and strain computation has been mostly achieved through dynamic magnetic resonance (MR) imaging. However, such data lack information on tissue's intrinsic fiber directions, preventing computed strain tensors from being projected onto a direction of interest. Although diffusion-weighted MR imaging excels at providing fiber tractography, it yields static images unmatched with dynamic MR data. This work reports an algorithm workflow that estimates strain values in the diffusion MR space by matching corresponding tagged dynamic MR images. We focus on processing a dataset of various human tongue deformations in speech. The geometry of tongue muscle fibers is provided by diffusion tractography, while spatiotemporal motion fields are provided by tagged MR analysis. The tongue's deforming shapes are determined by segmenting a synthetic cine dynamic MR sequence generated from tagged data using a deep neural network. Estimated motion fields are transformed into the diffusion MR space using diffeomorphic registration, eventually leading to strain values computed in the direction of muscle fibers. The method was tested on 78 time volumes acquired during three sets of specific tongue deformations including both speech and protrusion motion. Strain in the line of action of seven internal tongue muscles was extracted and compared both intra- and inter-subject. Resulting compression and stretching patterns of individual muscles revealed the unique behavior of individual muscles and their potential activation pattern.

Diffeomorphic registration for retinotopic maps of multiple visual regions.

Retinotopic map, the mapping between visual inputs on the retina and neuronal responses on the cortical surface, is one of the central topics in vision science. Typically, human retinotopic maps are constructed by analyzing functional magnetic resonance responses to designed visual stimuli on the cortical surface. Although it is widely used in visual neuroscience, retinotopic maps are limited by the signal-to-noise ratio and spatial resolution of fMRI. One promising approach to improve the quality of retinotopic maps is to register individual subject's retinotopic maps to a retinotopic template. However, none of the existing retinotopic registration methods has explicitly quantified the diffeomorphic condition, that is, retinotopic mapsshall be aligned by stretching/compressing without tearing up the cortical surface. Here, we developed Diffeomorphic Registration for Retinotopic Maps (DRRM) to simultaneously align retinotopic maps in multiple visual regions under the diffeomorphic condition. Specifically, we used the Beltrami coefficient to model the diffeomorphic condition and performed surface registration based on retinotopic coordinates. The overall framework preserves the topological condition defined in the template. We further developed a unique evaluation protocol and compared the performance of the new method with several existing registration methods on both synthetic and real datasets. The results showed that DRRM is superior to the existing methods in achieving diffeomorphic registration in synthetic and empirical data from 3T and 7T MRI systems. DRRM may improve the interpretation of low-quality retinotopic maps and facilitate applications of retinotopic maps in clinical settings.

Improving predictive CTV segmentation on CT and CBCT for cervical cancer by diffeomorphic registration of a prior.

Automatic cervix-uterus segmentation of the clinical target volume (CTV) on CT and cone-beam CT (CBCT) scans is challenged by the limited visibility and the non-anatomical definition of certain border regions. We study the potential performance gain of convolutional neural networks by regulating the segmentation predictions as diffeomorphic deformations of a segmentation prior. We introduce a 3D convolutional neural network that segments the target scan by joint voxel-wise classification and the registration of a given prior. We compare this network to two other 3D baseline models: One treating segmentation as a classification problem (segmentation-only), the other as a registration problem (deformation-only). For reference and to highlight the benefits of a 3D model, these models are also benchmarked against a 2D segmentation model. Network performances are reported for CT and CBCT segmentation of the cervix-uterus CTV. We train the networks on the data of 84 patients. The prior is provided by the CTV segmentation of a planning CT. Repeat CT or CBCT scans constitute the target scans to be segmented. All 3D models outperformed the 2D segmentation model. For CT segmentation, combining classification and registration in the proposed joint model proved beneficial, achieving a Dice score of 0.87 and a mean squared error (MSE) of the surface distance below 1.7mm. No such synergy was observed for CBCT segmentation, for which the joint and the deformation-only model performed similarly, achieving a Dice score of about 0.80 and an MSE surface distance of 2.5mm. However, the segmentation-only model performed notably worse in this low contrast regime. Visual inspection revealed that this performance drop translated into geometric inconsistencies between the prior and target segmentation. Such inconsistencies were not observed for the deformation-based models. Constraining the solution space of admissible segmentation predictions to those reachable by a diffeomorphic deformation of the prior proved beneficial as it improved geometric consistency. Especially for CBCT, with its poor soft-tissue contrast, this type of regularization becomes important as shown by quantitative and qualitative evaluation.

LDDMM Meets GANs: Generative Adversarial Networks for Diffeomorphic Registration

In this work, we propose an unsupervised adversarial learning LDDMM method for 3D mono-modal images based on Generative Adversarial Networks. We have successfully implemented two models with stationary and EPDiff constrained non-stationary parameterizations of diffeomorphisms. Our approach has shown a competitive performance with respect to benchmark supervised and model-based methods.

Ubaldo Ramón: LDDMM Meets GANs: Generative Adversarial Networks for Diffeomorphic Registration

Ubaldo Ramón: LDDMM Meets GANs: Generative Adversarial Networks for Diffeomorphic Registration

CNN-based Deformable Registration Facilitates Fast and Accurate Air Trapping Measurements at Inspiratory and Expiratory CT.

To develop a convolutional neural network (CNN)-based deformable lung registration algorithm to reduce computation time and assess its potential for lobar air trapping quantification. In this retrospective study, a CNN algorithm was developed to perform deformable registration of lung CT (LungReg) using data on 9118 patients from the COPDGene Study (data collected between 2007 and 2012). Loss function constraints included cross-correlation, displacement field regularization, lobar segmentation overlap, and the Jacobian determinant. LungReg was compared with a standard diffeomorphic registration (SyN) for lobar Dice overlap, percentage voxels with nonpositive Jacobian determinants, and inference runtime using paired t tests. Landmark colocalization error (LCE) across 10 patients was compared using a random effects model. Agreement between LungReg and SyN air trapping measurements was assessed using intraclass correlation coefficient. The ability of LungReg versus SyN emphysema and air trapping measurements to predict Global Initiative for Chronic Obstructive Lung Disease (GOLD) stages was compared using area under the receiver operating characteristic curves. Average performance of LungReg versus SyN showed lobar Dice overlap score of 0.91-0.97 versus 0.89-0.95, respectively (P < .001); percentage voxels with nonpositive Jacobian determinant of 0.04 versus 0.10, respectively (P < .001); inference run time of 0.99 second (graphics processing unit) and 2.27 seconds (central processing unit) versus 418.46 seconds (central processing unit) (P < .001); and LCE of 7.21 mm versus 6.93 mm (P < .001). LungReg and SyN whole-lung and lobar air trapping measurements achieved excellent agreement (intraclass correlation coefficients > 0.98). LungReg versus SyN area under the receiver operating characteristic curves for predicting GOLD stage were not statistically different (range, 0.88-0.95 vs 0.88-0.95, respectively; P = .31-.95). CNN-based deformable lung registration is accurate and fully automated, with runtime feasible for clinical lobar air trapping quantification, and has potential to improve diagnosis of small airway diseases.Keywords: Air Trapping, Convolutional Neural Network, Deformable Registration, Small Airway Disease, CT, Lung, Semisupervised Learning, Unsupervised Learning Supplemental material is available for this article. © RSNA, 2021 An earlier incorrect version of this article appeared online. This article was corrected on December 22, 2021.

An Integrated Method for Large Deformable Registration of Brain Images.

Large deformable registration of brain images is essential for a variety of clinical imaging applications. State-of-the-art diffeomorphic registration methods, such as large deformation diffeomorphic mapping (LDDMM), have high computational complexity and often require pre-processing to account for large, global displacements or rotations. In this paper, we present an integrated method that fuses landmark-based thin-plate splines (TPS), patch-based B-spline and partial differential equation (PDE) based registrations synergistically to achieve improved accuracy and efficiency for large deformable registration of brain image. Landmark-based TPS and patch-based B-spline were used for global affine transformation followed by deformable registration using LDDMM. The anatomical discrepancies between the source and target images were significantly reduced after TPS and B-spline based registration. As a result, the PDE based deformable registration could be done efficiently and effectively. The performance of the proposed method has been evaluated using simulation and real human brain image data, which provided more accurate registration than spline or PDE-based methods. Moreover, the computational efficiency of our method was significantly better than PDE-based methods. The proposed method may be useful for handling large deformable registration of brain images in various brain imaging applications.

Ex vivo MRI atlas of the human medial temporal lobe: characterizing neurodegeneration due to tau pathology

Tau neurofibrillary tangle (NFT) pathology in the medial temporal lobe (MTL) is closely linked to neurodegeneration, and is the early pathological change associated with Alzheimer’s disease (AD). To elucidate patterns of structural change in the MTL specifically associated with tau pathology, we compared high-resolution ex vivo MRI scans of human postmortem MTL specimens with histology-based pathological assessments of the MTL. MTL specimens were obtained from twenty-nine brain donors, including patients with AD, other dementias, and individuals with no known history of neurological disease. Ex vivo MRI scans were combined using a customized groupwise diffeomorphic registration approach to construct a 3D probabilistic atlas that captures the anatomical variability of the MTL. Using serial histology imaging in eleven specimens, we labelled the MTL subregions in the atlas based on cytoarchitecture. Leveraging the atlas and neuropathological ratings of tau and TAR DNA-binding protein 43 (TDP-43) pathology severity, morphometric analysis was performed to correlate regional MTL thickness with the severity of tau pathology, after correcting for age and TDP-43 pathology. We found significant correlations between tau pathology and thickness in the entorhinal cortex (ERC) and stratum radiatum lacunosum moleculare (SRLM). When focusing on cases with low levels of TDP-43 pathology, we found strong associations between tau pathology and thickness in the ERC, SRLM and the subiculum/cornu ammonis 1 (CA1) subfields of the hippocampus, consistent with early Braak stages.

Muscle strain analysis from diffusion tractography and dynamic magnetic resonance imaging of the moving tongue

Strain estimation of a deforming human tongue is an important task in motor control studies. Various magnetic resonance imaging (MRI) modalities provided versatile acquisition tools, facilitating accurate strain computation and quantitative analysis. We report a method that combines data from diffusion and dynamic MRI to yield strain values along internal tongue muscle fiber directions. Dynamic MRI provides spatiotemporal muscle motion. Diffusion tractography provides muscle fiber geometry. Since the two datasets exist in different physical spaces and tractography is susceptible to numerical errors if spatially transformed, we transformed only muscle motion fields from the dynamic MRI space to the diffusion MRI space using diffeomorphic registration. Strain tensors were then computed and projected onto the fiber directions. Masks were used to extract strain of individual muscles. Three tongue motions while pronouncing two utterances and making a forward protrusion were processed. Resulting strain patterns on seven internal muscles showed that some muscles stayed stretched or compressed over all motion time while other muscles switched between stretches and compressions depending on specific tongue shapes. The proposed method enables accurate assessment of variations in muscle strains, which potentially reveals muscle activation patterns and provides insights into the tongue's detailed mechanics in speech motor control.