Quantitative susceptibility mapping (QSM) estimates the underlying tissue magnetic susceptibility from MRI gradient-echo phase signal and typically requires several processing steps. These steps involve phase unwrapping, brain volume extraction, background phase removal and solving an ill-posed inverse problem. The resulting susceptibility map is known to suffer from inaccuracy near the edges of the brain tissues, in part due to imperfect brain extraction, edge erosion of the brain tissue and the lack of phase measurement outside the brain. This inaccuracy has thus hindered the application of QSM for measuring the susceptibility of tissues near the brain edges, e.g., quantifying cortical layers and generating superficial venography. To address these challenges, we propose a learning-based QSM reconstruction method that directly estimates the magnetic susceptibility from total phase images without the need for brain extraction and background phase removal, referred to as autoQSM. The neural network has a modified U-net structure and is trained using QSM maps computed by a two-step QSM method. 209 healthy subjects with ages ranging from 11 to 82 years were employed for patch-wise network training. The network was validated on data dissimilar to the training data, e.g. in vivo mouse brain data and brains with lesions, which suggests that the network has generalized and learned the underlying mathematical relationship between magnetic field perturbation and magnetic susceptibility. AutoQSM was able to recover magnetic susceptibility of anatomical structures near the edges of the brain including the veins covering the cortical surface, spinal cord and nerve tracts near the mouse brain boundaries. The advantages of high-quality maps, no need for brain volume extraction and high reconstruction speed demonstrate its potential for future applications.

Non-coding RNA (ncRNA) are RNA sequences which don't code for a gene but instead carry important biological functions. The task of ncRNA classification consists in classifying a given ncRNA sequence into its family. While it has been shown that the graph structure of an ncRNA sequence folding is of great importance for the prediction of its family, current methods make use of machine learning classifiers on hand-crafted graph features. We improve on the state-of-the-art for this task with a graph convolutional network model which achieves an accuracy of 85.73% and an F1-score of 85.61% over 13 classes. Moreover, our model learns in an end-to-end fashion from the raw RNA graphs and removes the need for expensive feature extraction. To the best of our knowledge, this also represents the first successful application of graph convolutional networks to RNA folding data.

Purpose: Arterial Spin Labeling (ASL) is a quantitative, non-invasive alternative to perfusion imaging with contrast agents. Fixing values of certain model parameters in traditional ASL, which actually vary from region to region, may introduce bias in perfusion estimates. Adopting Magnetic Resonance Fingerprinting (MRF) for ASL is an alternative where these parameters are estimated alongside perfusion, but multiparametric estimation can degrade precision. We aim to improve the sensitivity of ASL-MRF signals to underlying parameters to counter this problem, and provide precise estimates. We also propose a regression based estimation framework for MRF-ASL. Methods: To improve the sensitivity of MRF-ASL signals to underlying parameters, we optimize ASL labeling durations using the Cramer-Rao Lower Bound (CRLB). This paper also proposes a neural network regression based estimation framework trained using noisy synthetic signals generated from our ASL signal model. Results: We test our methods in silico and in vivo, and compare with multiple post labeling delay (multi-PLD) ASL and unoptimized MRF-ASL. We present comparisons of estimated maps for six parameters accounted for in our signal model. Conclusions: The scan design process facilitates precise estimates of multiple hemodynamic parameters and tissue properties from a single scan, in regions of gray and white matter, as well as regions with anomalous perfusion activity in the brain. The regression based estimation approach provides perfusion estimates rapidly, and bypasses problems with quantization error. Keywords: Arterial Spin Labeling, Magnetic Resonance Fingerprinting, Optimization, Cramer-Rao Bound, Scan Design, Regression, Neural Networks, Deep Learning, Precision, Estimation, Brain Hemodynamics.

Adversarial examples are carefully perturbed in-puts for fooling machine learning models. A well-acknowledged defense method against such examples is adversarial training, where adversarial examples are injected into training data to increase robustness. In this paper, we propose a new attack to unveil an undesired property of the state-of-the-art adversarial training, that is it fails to obtain robustness against perturbations in $\ell_2$ and $\ell_\infty$ norms simultaneously. We discuss a possible solution to this issue and its limitations as well.

Existing methods for reducing the computational burden of neural networks at run-time, such as parameter pruning or dynamic computational path selection, focus solely on improving computational efficiency during inference. On the other hand, in this work, we propose a novel method which reduces the memory footprint and number of computing operations required for training and inference. Our framework efficiently integrates pruning as part of the training procedure by exploring and tracking the relative importance of convolutional channels. At each training step, we select only a subset of highly salient channels to execute according to the combinatorial upper confidence bound algorithm, and run a forward and backward pass only on these activated channels, hence learning their parameters. Consequently, we enable the efficient discovery of compact models. We validate our approach empirically on state-of-the-art CNNs - VGGNet, ResNet and DenseNet, and on several image classification datasets. Results demonstrate our framework for dynamic channel execution reduces computational cost up to 4x and parameter count up to 9x, thus reducing the memory and computational demands for discovering and training compact neural network models.

Humans achieve efficient learning by relying on prior knowledge about the structure of naturally occurring tasks. There has been considerable interest in designing reinforcement learning algorithms with similar properties. This includes several proposals to learn the learning algorithm itself, an idea also referred to as meta learning. One formal interpretation of this idea is in terms of a partially observable multi-task reinforcement learning problem in which information about the task is hidden from the agent. Although agents that solve partially observable environments can be trained from rewards alone, shaping an agent's memory with additional supervision has been shown to boost learning efficiency. It is thus natural to ask what kind of supervision, if any, facilitates meta-learning. Here we explore several choices and develop an architecture that separates learning of the belief about the unknown task from learning of the policy, and that can be used effectively with privileged information about the task during training. We show that this approach can be very effective at solving standard meta-RL environments, as well as a complex continuous control environment in which a simulated robot has to execute various movement sequences.

Taxi demand prediction has recently attracted increasing research interest due to its huge potential application in large-scale intelligent transportation systems. However, most of the previous methods only considered the taxi demand prediction in origin regions, but neglected the modeling of the specific situation of the destination passengers. We believe it is suboptimal to preallocate the taxi into each region based solely on the taxi origin demand. In this paper, we present a challenging and worth-exploring task, called taxi origin-destination demand prediction, which aims at predicting the taxi demand between all region pairs in a future time interval. Its main challenges come from how to effectively capture the diverse contextual information to learn the demand patterns. We address this problem with a novel Contextualized Spatial-Temporal Network (CSTN), which consists of three components for the modeling of local spatial context (LSC), temporal evolution context (TEC) and global correlation context (GCC) respectively. Firstly, an LSC module utilizes two convolution neural networks to learn the local spatial dependencies of taxi demand respectively from the origin view and the destination view. Secondly, a TEC module incorporates both the local spatial features of taxi demand and the meteorological information to a Convolutional Long Short-term Memory Network (ConvLSTM) for the analysis of taxi demand evolution. Finally, a GCC module is applied to model the correlation between all regions by computing a global correlation feature as a weighted sum of all regional features, with the weights being calculated as the similarity between the corresponding region pairs. Extensive experiments and evaluations on a large-scale dataset well demonstrate the superiority of our CSTN over other compared methods for taxi origin-destination demand prediction.

Model-free reinforcement learning based methods such as Proximal Policy Optimization, or Q-learning typically require thousands of interactions with the environment to approximate the optimum controller which may not always be feasible in robotics due to safety and time consumption. Model-based methods such as PILCO or BlackDrops, while data-efficient, provide solutions with limited robustness and complexity. To address this tradeoff, we introduce active uncertainty reduction-based virtual environments, which are formed through limited trials conducted in the original environment. We provide an efficient method for uncertainty management, which is used as a metric for self-improvement by identification of the points with maximum expected improvement through adaptive sampling. Capturing the uncertainty also allows for better mimicking of the reward responses of the original system. Our approach enables the use of complex policy structures and reward functions through a unique combination of model-based and model-free methods, while still retaining the data efficiency. We demonstrate the validity of our method on several classic reinforcement learning problems in OpenAI gym. We prove that our approach offers a better modeling capacity for complex system dynamics as compared to established methods.

Recently, a number of learning-based optimization methods that combine data-driven architectures with the classical optimization algorithms have been proposed and explored, showing superior empirical performance in solving various ill-posed inverse problems, but there is still a scarcity of rigorous analysis about the convergence behaviors of learning-based optimization. In particular, most existing analyses are specific to unconstrained problems but cannot apply to the more general cases where some variables of interest are subject to certain constraints. In this paper, we propose Differentiable Linearized ADMM (D-LADMM) for solving the problems with linear constraints. Specifically, D-LADMM is a K-layer LADMM inspired deep neural network, which is obtained by firstly introducing some learnable weights in the classical Linearized ADMM algorithm and then generalizing the proximal operator to some learnable activation function. Notably, we rigorously prove that there exist a set of learnable parameters for D-LADMM to generate globally converged solutions, and we show that those desired parameters can be attained by training D-LADMM in a proper way. To the best of our knowledge, we are the first to provide the convergence analysis for the learning-based optimization method on constrained problems.

Neural networks and deep learning are changing the way that artificial intelligence is being done. Efficiently choosing a suitable network architecture and fine-tune its hyper-parameters for a specific dataset is a time-consuming task given the staggering number of possible alternatives. In this paper, we address the problem of model selection by means of a fully automated framework for efficiently selecting a neural network model for a given task: classification or regression. The algorithm, named Automatic Model Selection, is a modified micro-genetic algorithm that automatically and efficiently finds the most suitable neural network model for a given dataset. The main contributions of this method are a simple list based encoding for neural networks as genotypes in an evolutionary algorithm, new crossover, and mutation operators, the introduction of a fitness function that considers both, the accuracy of the model and its complexity and a method to measure the similarity between two neural networks. AMS is evaluated on two different datasets. By comparing some models obtained with AMS to state-of-the-art models for each dataset we show that AMS can automatically find efficient neural network models. Furthermore, AMS is computationally efficient and can make use of distributed computing paradigms to further boost its performance.