Quantification of anatomical shape changes still relies on scalar global indexes which are largely insensitive to regional or asymmetric modifications. Accurate assessment of pathology-driven anatomical remodeling is a crucial step for the diagnosis and treatment of heart conditions. Deep learning approaches have recently achieved wide success in the analysis of medical images, but they lack interpretability in the feature extraction and decision processes. In this work, we propose a new interpretable deep learning model for shape analysis. In particular, we exploit deep generative networks to model a population of anatomical segmentations through a hierarchy of conditional latent variables. At the highest level of this hierarchy, a two-dimensional latent space is simultaneously optimised to discriminate distinct clinical conditions, enabling the direct visualisation of the classification space. Moreover, the anatomical variability encoded by this discriminative latent space can be visualised in the segmentation space thanks to the generative properties of the model, making the classification task transparent. This approach yielded high accuracy in the categorisation of healthy and remodelled hearts when tested on unseen segmentations from our own multi-centre dataset as well as in an external validation set. More importantly, it enabled the visualisation in three-dimensions of the most discriminative anatomical features between the two conditions. The proposed approach scales effectively to large populations, facilitating high-throughput analysis of normal anatomy and pathology in large-scale studies of volumetric imaging.
Deep generative models have demonstrated great performance in learning data distributions over a low-dimensional set of latent variables and in generating new unseen samples, which is not possible with standard autoencoder models. Among this class of models, variational autoencoder (VAE) models @cite_27 learn a continuous latent representation by enforcing it to follow a predefined distribution. VAEs have been successful at learning the latent space representing deforming 3D shapes for a variety of applications, including shape space embedding and generation, outperforming state-of-the-art methods @cite_20 , @cite_19 . In the medical imaging domain, VAEs have been exploited to approximate the distribution and likelihood of previously unseen MR images @cite_8 , to learn a low-dimensional manifold of 3D fet al skull segmentations @cite_6 and to learn a low-dimensional probabilistic deformation model for cardiac image registration @cite_33 .
@cite_33 @cite_8 @cite_6 @cite_19 @cite_27 @cite_20
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Given data, deep generative models, such as variational autoencoders (VAE) and generative adversarial networks (GAN), train a lower dimensional latent representation of the data space. The linear Euclidean geometry of data space pulls back to a nonlinear Riemannian geometry on the latent space. The latent space thus provides a low-dimensional nonlinear representation of data and classical linear statistical techniques are no longer applicable. In this paper we show how statistics of data in their latent space representation can be performed using techniques from the field of nonlinear manifold statistics. Nonlinear manifold statistics provide generalizations of Euclidean statistical notions including means, principal component analysis, and maximum likelihood fits of parametric probability distributions. We develop new techniques for maximum likelihood inference in latent space, and adress the computational complexity of using geometric algorithms with high-dimensional data by training a separate neural network to approximate the Riemannian metric and cometric tensor capturing the shape of the learned data manifold. An ability to model a generative process and learn a latent representation for speech in an unsupervised fashion will be crucial to process vast quantities of unlabelled speech data. Recently, deep probabilistic generative models such as Variational Autoencoders (VAEs) have achieved tremendous success in modeling natural images. In this paper, we apply a convolutional VAE to model the generative process of natural speech. We derive latent space arithmetic operations to disentangle learned latent representations. We demonstrate the capability of our model to modify the phonetic content or the speaker identity for speech segments using the derived operations, without the need for parallel supervisory data. Generative models, such as variational auto-encoders (VAE) and generative adversarial networks (GAN), have been immensely successful in approximating image statistics in computer vision. VAEs are useful for unsupervised feature learning, while GANs alleviate supervision by penalizing inaccurate samples using an adversarial game. In order to utilize benefits of these two approaches, we combine the VAE under an adversarial setup with auxiliary label information. We show that factorizing the latent space to separate the information needed for reconstruction (a continuous space) from the information needed for image attribute classification (a discrete space), enables the capability to edit specific attributes of an image. We explore methods of producing adversarial examples on deep generative models such as the variational autoencoder (VAE) and the VAE-GAN. Deep learning architectures are known to be vulnerable to adversarial examples, but previous work has focused on the application of adversarial examples to classification tasks. Deep generative models have recently become popular due to their ability to model input data distributions and generate realistic examples from those distributions. We present three classes of attacks on the VAE and VAE-GAN architectures and demonstrate them against networks trained on MNIST, SVHN and CelebA. Our first attack leverages classification-based adversaries by attaching a classifier to the trained encoder of the target generative model, which can then be used to indirectly manipulate the latent representation. Our second attack directly uses the VAE loss function to generate a target reconstruction image from the adversarial example. Our third attack moves beyond relying on classification or the standard loss for the gradient and directly optimizes against differences in source and target latent representations. We also motivate why an attacker might be interested in deploying such techniques against a target generative network.