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Register a new userA Geometry-Informed Deep Learning Framework for Ultra-Sparse 3D Tomographic Image Reconstruction
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Added by
Liyue Shen
Publication date
2021
fields
Informatics Engineering
and research's language is
English
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Deep learning affords enormous opportunities to augment the armamentarium of biomedical imaging, albeit its design and implementation have potential flaws. Fundamentally, most deep learning models are driven entirely by data without consideration of any prior knowledge, which dramatically increases the complexity of neural networks and limits the application scope and model generalizability. Here we establish a geometry-informed deep learning framework for ultra-sparse 3D tomographic image reconstruction. We introduce a novel mechanism for integrating geometric priors of the imaging system. We demonstrate that the seamless inclusion of known priors is essential to enhance the performance of 3D volumetric computed tomography imaging with ultra-sparse sampling. The study opens new avenues for data-driven biomedical imaging and promises to provide substantially improved imaging tools for various clinical imaging and image-guided interventions.
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Surface reconstruction from magnetic resonance (MR) imaging data is indispensable in medical image analysis and clinical research. A reliable and effective reconstruction tool should: be fast in prediction of accurate well localised and high resolution models, evaluate prediction uncertainty, work with as little input data as possible. Current deep learning state of the art (SOTA) 3D reconstruction methods, however, often only produce shapes of limited variability positioned in a canonical position or lack uncertainty evaluation. In this paper, we present a novel probabilistic deep learning approach for concurrent 3D surface reconstruction from sparse 2D MR image data and aleatoric uncertainty prediction. Our method is capable of reconstructing large surface meshes from three quasi-orthogonal MR imaging slices from limited training sets whilst modelling the location of each mesh vertex through a Gaussian distribution. Prior shape information is encoded using a built-in linear principal component analysis (PCA) model. Extensive experiments on cardiac MR data show that our probabilistic approach successfully assesses prediction uncertainty while at the same time qualitatively and quantitatively outperforms SOTA methods in shape prediction. Compared to SOTA, we are capable of properly localising and orientating the prediction via the use of a spatially aware neural network.
Tomographic reconstruction recovers an unknown image given its projections from different angles. State-of-the-art methods addressing this problem assume the angles associated with the projections are known a-priori. Given this knowledge, the reconstruction process is straightforward as it can be formulated as a convex problem. Here, we tackle a more challenging setting: 1) the projection angles are unknown, 2) they are drawn from an unknown probability distribution. In this set-up our goal is to recover the image and the projection angle distribution using an unsupervised adversarial learning approach. For this purpose, we formulate the problem as a distribution matching between the real projection lines and the generated ones from the estimated image and projection distribution. This is then solved by reaching the equilibrium in a min-max game between a generator and a discriminator. Our novel contribution is to recover the unknown projection distribution and the image simultaneously using adversarial learning. To accommodate this, we use Gumbel-softmax approximation of samples from categorical distribution to approximate the generators loss as a function of the unknown image and the projection distribution. Our approach can be generalized to different inverse problems. Our simulation results reveal the ability of our method in successfully recovering the image and the projection distribution in various settings.
Graph matching aims to establish correspondences between vertices of graphs such that both the node and edge attributes agree. Various learning-based methods were recently proposed for finding correspondences between image key points based on deep graph matching formulations. While these approaches mainly focus on learning node and edge attributes, they completely ignore the 3D geometry of the underlying 3D objects depicted in the 2D images. We fill this gap by proposing a trainable framework that takes advantage of graph neural networks for learning a deformable 3D geometry model from inhomogeneous image collections, i.e. a set of images that depict different instances of objects from the same category. Experimentally we demonstrate that our method outperforms recent learning-based approaches for graph matching considering both accuracy and cycle-consistency error, while we in addition obtain the underlying 3D geometry of the objects depicted in the 2D images.
We introduce a simple and versatile framework for image-to-image translation. We unearth the importance of normalization layers, and provide a carefully designed two-stream generative model with newly proposed feature transformations in a coarse-to-fine fashion. This allows multi-scale semantic structure information and style representation to be effectively captured and fused by the network, permitting our method to scale to various tasks in both unsupervised and supervised settings. No additional constraints (e.g., cycle consistency) are needed, contributing to a very clean and simple method. Multi-modal image synthesis with arbitrary style control is made possible. A systematic study compares the proposed method with several state-of-the-art task-specific baselines, verifying its effectiveness in both perceptual quality and quantitative evaluations.
In this paper, we present a novel deep metric learning method to tackle the multi-label image classification problem. In order to better learn the correlations among images features, as well as labels, we attempt to explore a latent space, where images and labels are embedded via two unique deep neural networks, respectively. To capture the relationships between image features and labels, we aim to learn a emph{two-way} deep distance metric over the embedding space from two different views, i.e., the distance between one image and its labels is not only smaller than those distances between the image and its labels nearest neighbors, but also smaller than the distances between the labels and other images corresponding to the labels nearest neighbors. Moreover, a reconstruction module for recovering correct labels is incorporated into the whole framework as a regularization term, such that the label embedding space is more representative. Our model can be trained in an end-to-end manner. Experimental results on publicly available image datasets corroborate the efficacy of our method compared with the state-of-the-arts.
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