Scientists have found a correlation between a disease involving chronic pain and alterations in the gut microbiome. Fibromyalgia affects 2-4 percent of the population and has no known cure. Symptoms include fatigue, impaired sleep and cognitive difficulties, but the disease is most clearly characterized by widespread chronic pain. In a paper published today in the journal Pain, a Montreal-based research team has shown, for the first time, that there are alterations in the bacteria in the gastrointestinal tracts of people with fibromyalgia. Approximately 20 different species of bacteria were found in either greater or are lesser quantities in the microbiomes of participants suffering from the disease than in the healthy control group.

Rapidly estimating the remaining wall thickness (RWT) is paramount for the non-destructive condition assessment evaluation of large critical metallic pipelines. A robotic vehicle with embedded magnetism-based sensors has been developed to traverse the inside of a pipeline and conduct inspections at the location of a break. However its sensing speed is constrained by the magnetic principle of operation, thus slowing down the overall operation in seeking dense RWT mapping. To ameliorate this drawback, this work proposes the partial scanning of the pipe and then employing Gaussian Processes (GPs) to infer RWT at the unseen pipe sections. Since GP prediction assumes to have normally distributed input data - which does correspond with real RWT measurements - Gaussian mixture (GM) models are proven in this work as fitting marginal distributions to effectively capture the probability of any RWT value in the inspected data. The effectiveness of the proposed approach is extensively validated from real-world data collected in collaboration with a water utility from a cast iron water main pipeline in Sydney, Australia.

Interval type-2 (IT2) fuzzy systems have become increasingly popular in the last 20 years. They have demonstrated superior performance in many applications. However, the operation of an IT2 fuzzy system is more complex than that of its type-1 counterpart. There are many questions to be answered in designing an IT2 fuzzy system: Should singleton or non-singleton fuzzifier be used? How many membership functions (MFs) should be used for each input? Should Gaussian or piecewise linear MFs be used? Should Mamdani or Takagi-Sugeno-Kang (TSK) inference be used? Should minimum or product $t$-norm be used? Should type-reduction be used or not? How to optimize the IT2 fuzzy system? These questions may look overwhelming and confusing to IT2 beginners. In this paper we recommend some representative starting choices for an IT2 fuzzy system design, which hopefully will make IT2 fuzzy systems more accessible to IT2 fuzzy system designers.

Large prospective epidemiological studies acquire cardiovascular magnetic resonance (CMR) images for pre-symptomatic populations and follow these over time. To support this approach, fully automatic large-scale 3D analysis is essential. In this work, we propose a novel deep neural network using both CMR images and patient metadata to directly predict cardiac shape parameters. The proposed method uses the promising ability of statistical shape models to simplify shape complexity and variability together with the advantages of convolutional neural networks for the extraction of solid visual features. To the best of our knowledge, this is the first work that uses such an approach for 3D cardiac shape prediction. We validated our proposed CMR analytics method against a reference cohort containing 500 3D shapes of the cardiac ventricles. Our results show broadly significant agreement with the reference shapes in terms of the estimated volume of the cardiac ventricles, myocardial mass, 3D Dice, and mean and Hausdorff distance.

The choice of how to retain information about past gradients dramatically affects the convergence properties of state-of-the-art stochastic optimization methods, such as Heavy-ball, Nesterov's momentum, RMSprop and Adam. Building on this observation, we use stochastic differential equations (SDEs) to explicitly study the role of memory in gradient-based algorithms. We first derive a general continuous-time model that can incorporate arbitrary types of memory, for both deterministic and stochastic settings. We provide convergence guarantees for this SDE for weakly-quasi-convex and quadratically growing functions. We then demonstrate how to discretize this SDE to get a flexible discrete-time algorithm that can implement a board spectrum of memories ranging from short- to long-term. Not only does this algorithm increase the degrees of freedom in algorithmic choice for practitioners but it also comes with better stability properties than classical momentum in the convex stochastic setting. In particular, no iterate averaging is needed for convergence. Interestingly, our analysis also provides a novel interpretation of Nesterov's momentum as stable gradient amplification and highlights a possible reason for its unstable behavior in the (convex) stochastic setting. Furthermore, we discuss the use of long term memory for second-moment estimation in adaptive methods, such as Adam and RMSprop. Finally, we provide an extensive experimental study of the effect of different types of memory in both convex and nonconvex settings.

Recent literature has shown several benefits of hyperbolic embedding of graph-structured data (GSD) in representing their structures and latent relations. While several studies have explored the ability of hyperbolic embedding to represent data (for example, by quantifying their mean average precision) and their ability to produce better visualisations of clusters, only few works exploited the effectiveness of hyperbolic embedding to perform learning on the initial GSD. Motivated by innovative ideas from the fields of Brain computer interfaces and Radar processing, this paper presents a new scheme for learning GSD based on hyperbolic embedding, Riemannian barycentre (i.e. Fr\'echet or geometric mean) and $K$-means algorithms as a significant tool that derives from it. The main idea is as follows. Relying on the Riemannian barycentre, we define a notion of minimal variance which allows us to choose an embedding between different ones. This embedding is used thereafter together with $K$-means algorithms to perform unsupervised clustering and in combination with the nearest neighbour rule to perform supervised learning. We demonstrate the performance of the proposed framework through several experiments on real-world social networks and hierarchical GSD. The obtained results outperform their counterparts in high-dimensional Euclidean spaces and recent proposed geometric approaches.

We propose BMLE, a new family of bandit algorithms, that are formulated in a general way based on the Biased Maximum Likelihood Estimation method originally appearing in the adaptive control literature. We design the cost-bias term to tackle the exploration and exploitation tradeoff for stochastic bandit problems. We provide an explicit closed form expression for the index of an arm for Bernoulli bandits, which is trivial to compute. We also provide a general recipe for extending the BMLE algorithm to other families of reward distributions. We prove that for Bernoulli bandits, the BMLE algorithm achieves a logarithmic finite-time regret bound and hence attains order-optimality. Through extensive simulations, we demonstrate that the proposed algorithms achieve regret performance comparable to the best of several state-of-the-art baseline methods, while having a significant computational advantage in comparison to other best performing methods. The generality of the proposed approach makes it possible to address more complex models, including general adaptive control of Markovian systems.

We investigate the geometry of the empirical risk minimization problem for $k$-layer neural networks. We will provide examples showing that for the classical activation functions $\sigma(x)= 1/\bigl(1 + \exp(-x)\bigr)$ and $\sigma(x)=\tanh(x)$, there exists a positive-measured subset of target functions that do not have best approximations by a fixed number of layers of neural networks. In addition, we study in detail the properties of shallow networks, classifying cases when a best $k$-layer neural network approximation always exists or does not exist for the ReLU activation $\sigma=\max(0,x)$. We also determine the dimensions of shallow ReLU-activated networks.

In this work, we propose a method to reject out-of-distribution samples which can be adapted to any network architecture and requires no additional training data. Publicly available chest x-ray data (38,353 images) is used to train a standard ResNet-50 model to detect emphysema. Feature activations of intermediate layers are used as descriptors defining the training data distribution. A novel metric, FRODO, is measured by using the Mahalanobis distance of a new test sample to the training data distribution. The method is tested using a held-out test dataset of 21,176 chest x-rays (in-distribution) and a set of 14,821 out-of-distribution x-ray images of incorrect orientation or anatomy. In classifying test samples as in or out-of distribution, our method achieves an AUC score of 0.99.

Deep learning methods are increasingly being used with neuroimaging data like structural and function magnetic resonance imaging (MRI) to predict the diagnosis of neuropsychiatric and neurological disorders. For psychiatric disorders in particular, it is believed that one of the most promising modality is the resting-state functional MRI (rsfMRI), which captures the intrinsic connectivity between regions in the brain. Because rsfMRI data points are inherently high-dimensional (~1M), it is impossible to process the entire input in its raw form. In this paper, we propose a very simple transformation of the rsfMRI images that captures all of the temporal dynamics of the signal but sub-samples its spatial extent. As a result, we use a very simple 1-D convolutional network which is fast to train, requires minimal preprocessing and performs at par with the state-of-the-art on the classification of Autism spectrum disorders.