We consider a sparse high-dimensional varying coefficients model with random effects, a flexible linear model allowing covariates and coefficients to have a functional dependence with time. For each individual, we observe discretely sampled responses and covariates as a function of time as well as time invariant covariates. Under sampling times that are either fixed and common or random and independent amongst individuals, we propose a projection procedure for the empirical estimation of all varying coefficients. We extend this estimator to construct confidence bands for a fixed number of varying coefficients.
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In this paper, we consider the problem of determining the presence of a given signal in a high-dimensional observation with unknown covariance matrix by using an adaptive matched filter. Traditionally such filters are formed from the sample covariance matrix of some given training data, but, as is well-known, the performance of such filters is poor when the number of training data $n$ is not much larger than the data dimension $p$. We thus seek a covariance estimator to replace sample covariance. To account for the fact that $n$ and $p$ may be of comparable size, we adopt the "large-dimensional asymptotic model" in which $n$ and $p$ go to infinity in a fixed ratio. Under this assumption, we identify a covariance estimator that is asymptotically detection-theoretic optimal within a general shrinkage class inspired by C. Stein, and we give consistent estimates for conditional false-alarm and detection rate of the corresponding adaptive matched filter.
Pragmatic trials evaluating health care interventions often adopt cluster randomization due to scientific or logistical considerations. Previous reviews have shown that co-primary endpoints are common in pragmatic trials but infrequently recognized in sample size or power calculations. While methods for power analysis based on $K$ ($K\geq 2$) binary co-primary endpoints are available for CRTs, to our knowledge, methods for continuous co-primary endpoints are not yet available. Assuming a multivariate linear mixed model that accounts for multiple types of intraclass correlation coefficients (endpoint-specific ICCs, intra-subject ICCs and inter-subject between-endpoint ICCs) among the observations in each cluster, we derive the closed-form joint distribution of $K$ treatment effect estimators to facilitate sample size and power determination with different types of null hypotheses under equal cluster sizes. We characterize the relationship between the power of each test and different types of correlation parameters. We further relax the equal cluster size assumption and approximate the joint distribution of the $K$ treatment effect estimators through the mean and coefficient of variation of cluster sizes. Our simulation studies with a finite number of clusters indicate that the predicted power by our method agrees well with the empirical power, when the parameters in the multivariate linear mixed model are estimated via the expectation-maximization algorithm. An application to a real CRT is presented to illustrate the proposed method.
Longitudinal and survival sub-models are two building blocks for joint modelling of longitudinal and time to event data. Extensive research indicates separate analysis of these two processes could result in biased outputs due to their associations. Conditional independence between measurements of biomarkers and event time process given latent classes or random effects is a common approach for characterising the association between the two sub-models while taking the heterogeneity among the population into account. However, this assumption is tricky to validate because of the unobservable latent variables. Thus a Gaussian copula joint model with random effects is proposed to accommodate the scenarios where the conditional independence assumption is questionable. In our proposed model, the conventional joint model assuming conditional independence is a special case when the association parameter in the Gaussian copula shrinks to zero. Simulation studies and real data application are carried out to evaluate the performance of our proposed model. In addition, personalised dynamic predictions of survival probabilities are obtained based on the proposed model and comparisons are made to the predictions obtained under the conventional joint model.
In this paper, we propose an adaptive group Lasso deep neural network for high-dimensional function approximation where input data are generated from a dynamical system and the target function depends on few active variables or few linear combinations of variables. We approximate the target function by a deep neural network and enforce an adaptive group Lasso constraint to the weights of a suitable hidden layer in order to represent the constraint on the target function. We utilize the proximal algorithm to optimize the penalized loss function. Using the non-negative property of the Bregman distance, we prove that the proposed optimization procedure achieves loss decay. Our empirical studies show that the proposed method outperforms recent state-of-the-art methods including the sparse dictionary matrix method, neural networks with or without group Lasso penalty.
We consider a randomized controlled trial between two groups. The objective is to identify a population with characteristics such that the test therapy is more effective than the control therapy. Such a population is called a subgroup. This identification can be made by estimating the treatment effect and identifying interactions between treatments and covariates. To date, many methods have been proposed to identify subgroups for a single outcome. There are also multiple outcomes, but they are difficult to interpret and cannot be applied to outcomes other than continuous values. In this paper, we propose a multivariate regression method that introduces latent variables to estimate the treatment effect on multiple outcomes simultaneously. The proposed method introduces latent variables and adds Lasso sparsity constraints to the estimated loadings to facilitate the interpretation of the relationship between outcomes and covariates. The framework of the generalized linear model makes it applicable to various types of outcomes. Interpretation of subgroups is made by visualizing treatment effects and latent variables. This allows us to identify subgroups with characteristics that make the test therapy more effective for multiple outcomes. Simulation and real data examples demonstrate the effectiveness of the proposed method.
We investigate several rank-based change-point procedures for the covariance operator in a sequence of observed functions, called FKWC change-point procedures. Our methods allow the user to test for one change-point, to test for an epidemic period, or to detect an unknown amount of change-points in the data. Our methodology combines functional data depth values with the traditional Kruskal Wallis test statistic. By taking this approach we have no need to estimate the covariance operator, which makes our methods computationally cheap. For example, our procedure can identify multiple change-points in $O(n\log n)$ time. Our procedure is fully non-parametric and is robust to outliers through the use of data depth ranks. We show that when $n$ is large, our methods have simple behaviour under the null hypothesis.We also show that the FKWC change-point procedures are $n^{-1/2}$-consistent. In addition to asymptotic results, we provide a finite sample accuracy result for our at-most-one change-point estimator. In simulation, we compare our methods against several others. We also present an application of our methods to intraday asset returns and f-MRI scans.
Data augmentation has been widely used for training deep learning systems for medical image segmentation and plays an important role in obtaining robust and transformation-invariant predictions. However, it has seldom been used at test time for segmentation and not been formulated in a consistent mathematical framework. In this paper, we first propose a theoretical formulation of test-time augmentation for deep learning in image recognition, where the prediction is obtained through estimating its expectation by Monte Carlo simulation with prior distributions of parameters in an image acquisition model that involves image transformations and noise. We then propose a novel uncertainty estimation method based on the formulated test-time augmentation. Experiments with segmentation of fetal brains and brain tumors from 2D and 3D Magnetic Resonance Images (MRI) showed that 1) our test-time augmentation outperforms a single-prediction baseline and dropout-based multiple predictions, and 2) it provides a better uncertainty estimation than calculating the model-based uncertainty alone and helps to reduce overconfident incorrect predictions.
We propose a new method of estimation in topic models, that is not a variation on the existing simplex finding algorithms, and that estimates the number of topics K from the observed data. We derive new finite sample minimax lower bounds for the estimation of A, as well as new upper bounds for our proposed estimator. We describe the scenarios where our estimator is minimax adaptive. Our finite sample analysis is valid for any number of documents (n), individual document length (N_i), dictionary size (p) and number of topics (K), and both p and K are allowed to increase with n, a situation not handled well by previous analyses. We complement our theoretical results with a detailed simulation study. We illustrate that the new algorithm is faster and more accurate than the current ones, although we start out with a computational and theoretical disadvantage of not knowing the correct number of topics K, while we provide the competing methods with the correct value in our simulations.
Deep reinforcement learning (RL) methods generally engage in exploratory behavior through noise injection in the action space. An alternative is to add noise directly to the agent's parameters, which can lead to more consistent exploration and a richer set of behaviors. Methods such as evolutionary strategies use parameter perturbations, but discard all temporal structure in the process and require significantly more samples. Combining parameter noise with traditional RL methods allows to combine the best of both worlds. We demonstrate that both off- and on-policy methods benefit from this approach through experimental comparison of DQN, DDPG, and TRPO on high-dimensional discrete action environments as well as continuous control tasks. Our results show that RL with parameter noise learns more efficiently than traditional RL with action space noise and evolutionary strategies individually.
This paper reports Deep LOGISMOS approach to 3D tumor segmentation by incorporating boundary information derived from deep contextual learning to LOGISMOS - layered optimal graph image segmentation of multiple objects and surfaces. Accurate and reliable tumor segmentation is essential to tumor growth analysis and treatment selection. A fully convolutional network (FCN), UNet, is first trained using three adjacent 2D patches centered at the tumor, providing contextual UNet segmentation and probability map for each 2D patch. The UNet segmentation is then refined by Gaussian Mixture Model (GMM) and morphological operations. The refined UNet segmentation is used to provide the initial shape boundary to build a segmentation graph. The cost for each node of the graph is determined by the UNet probability maps. Finally, a max-flow algorithm is employed to find the globally optimal solution thus obtaining the final segmentation. For evaluation, we applied the method to pancreatic tumor segmentation on a dataset of 51 CT scans, among which 30 scans were used for training and 21 for testing. With Deep LOGISMOS, DICE Similarity Coefficient (DSC) and Relative Volume Difference (RVD) reached 83.2+-7.8% and 18.6+-17.4% respectively, both are significantly improved (p<0.05) compared with contextual UNet and/or LOGISMOS alone.
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