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Register a new userEstimation of Fiber Orientations Using Neighborhood Information
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Added by
Chuyang Ye
Publication date
2016
fields
Informatics Engineering
and research's language is
English
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Data from diffusion magnetic resonance imaging (dMRI) can be used to reconstruct fiber tracts, for example, in muscle and white matter. Estimation of fiber orientations (FOs) is a crucial step in the reconstruction process and these estimates can be corrupted by noise. In this paper, a new method called Fiber Orientation Reconstruction using Neighborhood Information (FORNI) is described and shown to reduce the effects of noise and improve FO estimation performance by incorporating spatial consistency. FORNI uses a fixed tensor basis to model the diffusion weighted signals, which has the advantage of providing an explicit relationship between the basis vectors and the FOs. FO spatial coherence is encouraged using weighted l1-norm regularization terms, which contain the interaction of directional information between neighbor voxels. Data fidelity is encouraged using a squared error between the observed and reconstructed diffusion weighted signals. After appropriate weighting of these competing objectives, the resulting objective function is minimized using a block coordinate descent algorithm, and a straightforward parallelization strategy is used to speed up processing. Experiments were performed on a digital crossing phantom, ex vivo tongue dMRI data, and in vivo brain dMRI data for both qualitative and quantitative evaluation. The results demonstrate that FORNI improves the quality of FO estimation over other state of the art algorithms.
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Characterizing large online social networks (OSNs) through node querying is a challenging task. OSNs often impose severe constraints on the query rate, hence limiting the sample size to a small fraction of the total network. Various ad-hoc subgraph sampling methods have been proposed, but many of them give biased estimates and no theoretical basis on the accuracy. In this work, we focus on developing sampling methods for OSNs where querying a node also reveals partial structural information about its neighbors. Our methods are optimized for NoSQL graph databases (if the database can be accessed directly), or utilize Web API available on most major OSNs for graph sampling. We show that our sampling method has provable convergence guarantees on being an unbiased estimator, and it is more accurate than current state-of-the-art methods. We characterize metrics such as node label density estimation and edge label density estimation, two of the most fundamental network characteristics from which other network characteristics can be derived. We evaluate our methods on-the-fly over several live networks using their native APIs. Our simulation studies over a variety of offline datasets show that by including neighborhood information, our method drastically (4-fold) reduces the number of samples required to achieve the same estimation accuracy of state-of-the-art methods.
While there has been a success in 2D human pose estimation with convolutional neural networks (CNNs), 3D human pose estimation has not been thoroughly studied. In this paper, we tackle the 3D human pose estimation task with end-to-end learning using CNNs. Relative 3D positions between one joint and the other joints are learned via CNNs. The proposed method improves the performance of CNN with two novel ideas. First, we added 2D pose information to estimate a 3D pose from an image by concatenating 2D pose estimation result with the features from an image. Second, we have found that more accurate 3D poses are obtained by combining information on relative positions with respect to multiple joints, instead of just one root joint. Experimental results show that the proposed method achieves comparable performance to the state-of-the-art methods on Human 3.6m dataset.
Diffusion magnetic resonance imaging (dMRI) is currently the only tool for noninvasively imaging the brains white matter tracts. The fiber orientation (FO) is a key feature computed from dMRI for fiber tract reconstruction. Because the number of FOs in a voxel is usually small, dictionary-based sparse reconstruction has been used to estimate FOs with a relatively small number of diffusion gradients. However, accurate FO estimation in regions with complex FO configurations in the presence of noise can still be challenging. In this work we explore the use of a deep network for FO estimation in a dictionary-based framework and propose an algorithm named Fiber Orientation Reconstruction guided by a Deep Network (FORDN). FORDN consists of two steps. First, we use a smaller dictionary encoding coarse basis FOs to represent the diffusion signals. To estimate the mixture fractions of the dictionary atoms (and thus coarse FOs), a deep network is designed specifically for solving the sparse reconstruction problem. Here, the smaller dictionary is used to reduce the computational cost of training. Second, the coarse FOs inform the final FO estimation, where a larger dictionary encoding dense basis FOs is used and a weighted l1-norm regularized least squares problem is solved to encourage FOs that are consistent with the network output. FORDN was evaluated and compared with state-of-the-art algorithms that estimate FOs using sparse reconstruction on simulated and real dMRI data, and the results demonstrate the benefit of using a deep network for FO estimation.
Knowledge of appropriate local fiber architecture is necessary to simulate patient-specific electromechanics in the human heart. However, it is not yet possible to reliably measure in-vivo fiber directions, especially in human atria. Thus, we present a method which defines the fiber architecture in arbitrarily shaped atria using image registration and reorientation methods based on atlas atria with fibers predefined from detailed histological observations. Thereby, it is possible to generate detailed fiber families in every new patient-specific geometry in an automated, time-efficient process. We demonstrate the good performance of the image registration and fiber definition on ten differently shaped human atria. Additionally, we show that characteristics of the electrophysiological activation pattern which appear in the atlas atria also appear in the patients atria. We arrive at analogous conclusions for coupled electro-mechano-hemodynamical computations.
We explore the importance of spatial contextual information in human pose estimation. Most state-of-the-art pose networks are trained in a multi-stage manner and produce several auxiliary predictions for deep supervision. With this principle, we present two conceptually simple and yet computational efficient modules, namely Cascade Prediction Fusion (CPF) and Pose Graph Neural Network (PGNN), to exploit underlying contextual information. Cascade prediction fusion accumulates prediction maps from previous stages to extract informative signals. The resulting maps also function as a prior to guide prediction at following stages. To promote spatial correlation among joints, our PGNN learns a structured representation of human pose as a graph. Direct message passing between different joints is enabled and spatial relation is captured. These two modules require very limited computational complexity. Experimental results demonstrate that our method consistently outperforms previous methods on MPII and LSP benchmark.
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