Localization of an object within an image is a common task in medical imaging. Learning to localize or detect objects typically requires the collection of data which has been labelled with bounding boxes or similar annotations, which can be very time consuming and expensive. A technique which could perform such learning with much less annotation would, therefore, be quite valuable. We present such a technique for localization with limited annotation, in which the number of images with bounding boxes can be a small fraction of the total dataset (e.g. less than 1%); all other images only possess a whole image label and no bounding box. We propose a novel loss function for tackling this problem; the loss is a continuous relaxation of a well-defined discrete formulation of weakly supervised learning and is numerically well-posed. Furthermore, we propose a new architecture which accounts for both patch dependence and shift-invariance, through the inclusion of CRF layers and anti-aliasing filters, respectively. We apply our technique to the localization of thoracic diseases in chest X-ray images and demonstrate state-of-the-art localization performance on the ChestX-ray14 dataset.
We introduce two constructions in geometric deep learning for 1) transporting orientation-dependent convolutional filters over a manifold in a continuous way and thereby defining a convolution operator that naturally incorporates the rotational effect of holonomy; and 2) allowing efficient evaluation of manifold convolution layers by sampling manifold valued random variables that center around a weighted Brownian motion maximum likelihood mean. Both methods are inspired by stochastics on manifolds and geometric statistics, and provide examples of how stochastic methods -- here horizontal frame bundle flows and non-linear bridge sampling schemes, can be used in geometric deep learning. We outline the theoretical foundation of the two methods, discuss their relation to Euclidean deep networks and existing methodology in geometric deep learning, and establish important properties of the proposed constructions.
Magnetic Resonance Imaging (MRI) has long been considered to be among "the gold standards" of diagnostic medical imaging. The long acquisition times, however, render MRI prone to motion artifacts, let alone their adverse contribution to the relative high costs of MRI examination. Over the last few decades, multiple studies have focused on the development of both physical and post-processing methods for accelerated acquisition of MRI scans. These two approaches, however, have so far been addressed separately. On the other hand, recent works in optical computational imaging have demonstrated growing success of concurrent learning-based design of data acquisition and image reconstruction schemes. In this work, we propose a novel approach to the learning of optimal schemes for conjoint acquisition and reconstruction of MRI scans, with the optimization carried out simultaneously with respect to the time-efficiency of data acquisition and the quality of resulting reconstructions. To be of a practical value, the schemes are encoded in the form of general k-space trajectories, whose associated magnetic gradients are constrained to obey a set of predefined hardware requirements (as defined in terms of, e.g., peak currents and maximum slew rates of magnetic gradients). With this proviso in mind, we propose a novel algorithm for the end-to-end training of a combined acquisition-reconstruction pipeline using a deep neural network with differentiable forward- and back-propagation operators. We also demonstrate the effectiveness of the proposed solution in application to both image reconstruction and image segmentation, reporting substantial improvements in terms of acceleration factors as well as the quality of these end tasks.
Generative models are often used to sample high-dimensional data points from a manifold with small intrinsic dimension. Existing techniques for comparing generative models focus on global data properties such as mean and covariance; in that sense, they are extrinsic and uni-scale. We develop the first, to our knowledge, intrinsic and multi-scale method for characterizing and comparing underlying data manifolds, based on comparing all data moments by lower-bounding the spectral notion of the Gromov-Wasserstein distance between manifolds. In a thorough experimental study, we demonstrate that our method effectively evaluates the quality of generative models; further, we showcase its efficacy in discerning the disentanglement process in neural networks.
Unlabeled video in the wild presents a valuable, yet so far unharnessed, source of information for learning vision tasks. We present the first attempt of fully self-supervised learning of object detection from subtitled videos without any manual object annotation. To this end, we use the How2 multi-modal collection of instructional videos with English subtitles. We pose the problem as learning with a weakly- and noisily-labeled data, and propose a novel training model that can confront high noise levels, and yet train a classifier to localize the object of interest in the video frames, without any manual labeling involved. We evaluate our approach on a set of 11 manually annotated objects in over 5000 frames and compare it to an existing weakly-supervised approach as baseline. Benchmark data and code will be released upon acceptance of the paper.
In the past few years, deep learning-based methods have demonstrated enormous success for solving inverse problems in medical imaging. In this work, we address the following question:\textit{Given a set of measurements obtained from real imaging experiments, what is the best way to use a learnable model and the physics of the modality to solve the inverse problem and reconstruct the latent image?} Standard supervised learning based methods approach this problem by collecting data sets of known latent images and their corresponding measurements. However, these methods are often impractical due to the lack of availability of appropriately sized training sets, and, more generally, due to the inherent difficulty in measuring the "groundtruth" latent image. In light of this, we propose a self-supervised approach to training inverse models in medical imaging in the absence of aligned data. Our method only requiring access to the measurements and the forward model at training. We showcase its effectiveness on inverse problems arising in accelerated magnetic resonance imaging (MRI).
Magnetic Resonance Imaging (MRI) is considered today the golden-standard modality for soft tissues. The long acquisition times, however, make it more prone to motion artifacts as well as contribute to the relatively high costs of this examination. Over the years, multiple studies concentrated on designing reduced measurement schemes and image reconstruction schemes for MRI, however, these problems have been so far addressed separately. On the other hand, recent works in optical computational imaging have demonstrated growing success of the simultaneous learning-based design of the acquisition and reconstruction schemes manifesting significant improvement in the reconstruction quality with a constrained time budget. Inspired by these successes, in this work, we propose to learn accelerated MR acquisition schemes (in the form of Cartesian trajectories) jointly with the image reconstruction operator. To this end, we propose an algorithm for training the combined acquisition-reconstruction pipeline end-to-end in a differentiable way. We demonstrate the significance of using the learned Cartesian trajectories at different speed up rates.
Medical ultrasound (US) is a widespread imaging modality owing its popularity to cost efficiency, portability, speed, and lack of harmful ionizing radiation. In this paper, we demonstrate that replacing the traditional ultrasound processing pipeline with a data-driven, learnable counterpart leads to significant improvement in image quality. Moreover, we demonstrate that greater improvement can be achieved through a learning-based design of the transmitted beam patterns simultaneously with learning an image reconstruction pipeline. We evaluate our method on an in-vivo first-harmonic cardiac ultrasound dataset acquired from volunteers and demonstrate the significance of the learned pipeline and transmit beam patterns on the image quality when compared to standard transmit and receive beamformers used in high frame-rate US imaging. We believe that the presented methodology provides a fundamentally different perspective on the classical problem of ultrasound beam pattern design.
We introduce the first completely unsupervised correspondence learning approach for deformable 3D shapes. Key to our model is the understanding that natural deformations (such as changes in pose) approximately preserve the metric structure of the surface, yielding a natural criterion to drive the learning process toward distortion-minimizing predictions. On this basis, we overcome the need for annotated data and replace it by a purely geometric criterion. The resulting learning model is class-agnostic, and is able to leverage any type of deformable geometric data for the training phase. In contrast to existing supervised approaches which specialize on the class seen at training time, we demonstrate stronger generalization as well as applicability to a variety of challenging settings. We showcase our method on a wide selection of correspondence benchmarks, where we outperform other methods in terms of accuracy, generalization, and efficiency.
Representing a graph as a vector is a challenging task; ideally, the representation should be easily computable and conducive to efficient comparisons among graphs, tailored to the particular data and analytical task at hand. Unfortunately, a "one-size-fits-all" solution is unattainable, as different analytical tasks may require different attention to global or local graph features. We develop SGR, the first, to our knowledge, method for learning graph representations in a self-supervised manner. Grounded on spectral graph analysis, SGR seamlessly combines all aforementioned desirable properties. In extensive experiments, we show how our approach works on large graph collections, facilitates self-supervised representation learning across a variety of application domains, and performs competitively to state-of-the-art methods without re-training.