Whole-brain neural connectivity data are now available from viral tracing experiments, which reveal the connections between a source injection site and elsewhere in the brain. These hold the promise of revealing spatial patterns of connectivity throughout the mammalian brain. To achieve this goal, we seek to fit a weighted, nonnegative adjacency matrix among 100 μm brain “voxels” using viral tracer data. Despite a multi-year experimental effort, injections provide incomplete coverage, and the number of voxels in our data is orders of magnitude larger than the number of injections, making the problem severely underdetermined. Furthermore, projection data are missing within the injection site because local connections there are not separable from the injection signal. We use a novel machine-learning algorithm to meet these challenges and develop a spatially explicit, voxel-scale connectivity map of the mouse visual system. Our method combines three features: a matrix completion loss for missing data, a smoothing spline penalty to regularize the problem, and (optionally) a low rank factorization. We demonstrate the consistency of our estimator using synthetic data and then apply it to newly available Allen Mouse Brain Connectivity Atlas data for the visual system. Our algorithm is significantly more predictive than current state of the art approaches which assume regions to be homogeneous. We demonstrate the efficacy of a low rank version on visual cortex data and discuss the possibility of extending this to a whole-brain connectivity matrix at the voxel scale.

Variational autoencoders are powerful models for unsupervised learning. However deep models with several layers of dependent stochastic variables are difficult to train which limits the improvements obtained using these highly expressive models. We propose a new inference model, the Ladder Variational Autoencoder, that recursively corrects the generative distribution by a data dependent approximate likelihood in a process resembling the recently proposed Ladder Network. We show that this model provides state of the art predictive log-likelihood and tighter log-likelihood lower bound compared to the purely bottom-up inference in layered Variational Autoencoders and other generative models. We provide a detailed analysis of the learned hierarchical latent representation and show that our new inference model is qualitatively different and utilizes a deeper more distributed hierarchy of latent variables. Finally, we observe that batch-normalization and deterministic warm-up (gradually turning on the KL-term) are crucial for training variational models with many stochastic layers.

We developed task-optimized deep neural networks (DNNs) that achieved state-of-the-art performance in different evaluation scenarios for automatic music tagging. These DNNs were subsequently used to probe the neural representations of music. Representational similarity analysis revealed the existence of a representational gradient across the superior temporal gyrus (STG). Anterior STG was shown to be more sensitive to low-level stimulus features encoded in shallow DNN layers whereas posterior STG was shown to be more sensitive to high-level stimulus features encoded in deep DNN layers.

We present the first general purpose framework for marginal maximum a posteriori estimation of probabilistic program variables. By using a series of code transformations, the evidence of any probabilistic program, and therefore of any graphical model, can be optimized with respect to an arbitrary subset of its sampled variables. To carry out this optimization, we develop the first Bayesian optimization package to directly exploit the source code of its target, leading to innovations in problem-independent hyperpriors, unbounded optimization, and implicit constraint satisfaction; delivering significant performance improvements over prominent existing packages. We present applications of our method to a number of tasks including engineering design and parameter optimization.

We capitalize on large amounts of unlabeled video in order to learn a model of scene dynamics for both video recognition tasks (e.g. action classification) and video generation tasks (e.g. future prediction). We propose a generative adversarial network for video with a spatio-temporal convolutional architecture that untangles the scene's foreground from the background. Experiments suggest this model can generate tiny videos up to a second at full frame rate better than simple baselines, and we show its utility at predicting plausible futures of static images. Moreover, experiments and visualizations show the model internally learns useful features for recognizing actions with minimal supervision, suggesting scene dynamics are a promising signal for representation learning. We believe generative video models can impact many applications in video understanding and simulation.

Nowadays, the number of layers and of neurons in each layer of a deep network are typically set manually. While very deep and wide networks have proven effective in general, they come at a high memory and computation cost, thus making them impractical for constrained platforms. These networks, however, are known to have many redundant parameters, and could thus, in principle, be replaced by more compact architectures. In this paper, we introduce an approach to automatically determining the number of neurons in each layer of a deep network during learning. To this end, we propose to make use of a group sparsity regularizer on the parameters of the network, where each group is defined to act on a single neuron. Starting from an overcomplete network, we show that our approach can reduce the number of parameters by up to 80\% while retaining or even improving the network accuracy.

We propose a stochastic optimization method for the minimization of the sum of three convex functions, one of which has Lipschitz continuous gradient as well as restricted strong convexity. Our approach is most suitable in the setting where it is computationally advantageous to process smooth term in the decomposition with its stochastic gradient estimate and the other two functions separately with their proximal operators, such as doubly regularized empirical risk minimization problems. We prove the convergence characterization of the proposed algorithm in expectation under the standard assumptions for the stochastic gradient estimate of the smooth term. Our method operates in the primal space and can be considered as a stochastic extension of the three-operator splitting method. Finally, numerical evidence supports the effectiveness of our method in real-world problems.

This paper deals with price optimization, which is to find the best pricing strategy that maximizes revenue or profit, on the basis of demand forecasting models. Though recent advances in regression technologies have made it possible to reveal price-demand relationship of a number of multiple products, most existing price optimization methods, such as mixed integer programming formulation, cannot handle tens or hundreds of products because of their high computational costs. To cope with this problem, this paper proposes a novel approach based on network flow algorithms. We reveal a connection between supermodularity of the revenue and cross elasticity of demand. On the basis of this connection, we propose an efficient algorithm that employs network flow algorithms. The proposed algorithm can handle hundreds or thousands of products, and returns an exact optimal solution under an assumption regarding cross elasticity of demand. Even in case in which the assumption does not hold, the proposed algorithm can efficiently find approximate solutions as good as can other state-of-the-art methods, as empirical results show.

We give a novel formal theoretical framework for unsupervised learning with two distinctive characteristics. First, it does not assume any generative model and based on a worst-case performance metric. Second, it is comparative, namely performance is measured with respect to a given hypothesis class. This allows to avoid known computational hardness results and improper algorithms based on convex relaxations. We show how several families of unsupervised learning models, which were previously only analyzed under probabilistic assumptions and are otherwise provably intractable, can be efficiently learned in our framework by convex optimization.

We study causal subset selection with Directed Information as the measure of prediction causality. Two typical tasks, causal sensor placement and covariate selection, are correspondingly formulated into cardinality constrained directed information maximizations. To attack the NP-hard problems, we show that the first problem is submodular while not necessarily monotonic. And the second one is ``nearly'' submodular. To substantiate the idea of approximate submodularity, we introduce a novel quantity, namely submodularity index (SmI), for general set functions. Moreover, we show that based on SmI, greedy algorithm has performance guarantee for the maximization of possibly non-monotonic and non-submodular functions, justifying its usage for a much broader class of problems. We evaluate the theoretical results with several case studies, and also illustrate the application of the subset selection to causal structure learning.