Fluorescent calcium imaging provides a potentially powerful tool for inferring connectivity in neural circuits with up to thousands of neurons. However, a key challenge in using calcium imaging for connectivity detection is that current systems often have a temporal response and frame rate that can be orders of magnitude slower than the underlying neural spiking process. Bayesian inference methods based on expectation-maximization (EM) have been proposed to overcome these limitations, but are often computationally demanding since the E-step in the EM procedure typically involves state estimation for a high-dimensional nonlinear dynamical system. In this work, we propose a computationally fast method for the state estimation based on a hybrid of loopy belief propagation and approximate message passing (AMP). The key insight is that a neural system as viewed through calcium imaging can be factorized into simple scalar dynamical systems for each neuron with linear interconnections between the neurons. Using the structure, the updates in the proposed hybrid AMP methodology can be computed by a set of one-dimensional state estimation procedures and linear transforms with the connectivity matrix. This yields a computationally scalable method for inferring connectivity of large neural circuits. Simulations of the method on realistic neural networks demonstrate good accuracy with computation times that are potentially significantly faster than current approaches based on Markov Chain Monte Carlo methods.

We propose a semi-parametric and dynamic rank factor model for topic modeling, capable of (i) discovering topic prevalence over time, and (ii) learning contemporary multi-scale dependence structures, providing topic and word correlations as a byproduct. The high-dimensional and time-evolving ordinal/rank observations (such as word counts), after an arbitrary monotone transformation, are well accommodated through an underlying dynamic sparse factor model. The framework naturally admits heavy-tailed innovations, capable of inferring abrupt temporal jumps in the importance of topics. Posterior inference is performed through straightforward Gibbs sampling, based on the forward-filtering backwardsampling algorithm. Moreover, an efficient data subsampling scheme is leveraged to speed up inference on massive datasets. The modeling framework is illustrated on two real datasets: the US State of the Union Address and the JSTOR collection from Science.

We introduce a new multi-task framework, in which K online learners are sharing a single annotator with limited bandwidth. On each round, each of the K learners receives an input, and makes a prediction about the label of that input. Then, a shared (stochastic) mechanism decides which of the K inputs will be annotated. The learner that receives the feedback (label) may update its prediction rule, and then we proceed to the next round. We develop an online algorithm for multitask binary classification that learns in this setting, and bound its performance in the worst-case setting. Additionally, we show that our algorithm can be used to solve two bandits problems: contextual bandits, and dueling bandits with context, both allow to decouple exploration and exploitation. Empirical study with OCR data, vowel prediction (VJ project) and document classification, shows that our algorithm outperforms other algorithms, one of which uses uniform allocation, and essentially achieves more (accuracy) for the same labour of the annotator.

Computing the partition function (i.e., the normalizing constant) of a given pairwise binary graphical model is NP-hard in general. As a result, the partition function is typically estimated by approximate inference algorithms such as belief propagation (BP) and tree-reweighted belief propagation (TRBP). The former provides reasonable estimates in practice but has convergence issues. The later has better convergence properties but typically provides poorer estimates. In this work, we propose a novel scheme that has better convergence properties than BP and provably provides better partition function estimates in many instances than TRBP. In particular, given an arbitrary pairwise binary graphical model, we construct a specific "attractive" 2-cover. We explore the properties of this special cover and show that it can be used to construct an algorithm with the desired properties.

Learning the dependency structure between spatially distributed observations of a spatio-temporal process is an important problem in many fields such as geology, geophysics, atmospheric sciences, oceanography, etc.. However, estimation of such systems is complicated by the fact that they exhibit dynamics at multiple scales of space and time arising due to a combination of diffusion and convection/advection [17]. As we show, time-series graphical models based on vector auto-regressive processes[18] are inefficient in capturing such multi-scale structure. In this paper, we present a hierarchical graphical model with physically derived priors that better represents the multi-scale character of these dynamical systems. We also propose algorithms to efficiently estimate the interaction structure from data. We demonstrate results on a general class of problems arising in exploration geophysics by discovering graphical structure that is physically meaningful and provide evidence of its advantages over alternative approaches.

We consider the challenging practical problem of optimizing the power production of a complex of hydroelectric power plants, which involves control over three continuous action variables, uncertainty in the amount of water inflows and a variety of constraints that need to be satisfied. We propose a policy-search-based approach coupled with predictive modelling to address this problem. This approach has some key advantages compared to other alternatives, such as dynamic programming: the policy representation and search algorithm can conveniently incorporate domain knowledge; the resulting policies are easy to interpret, and the algorithm is naturally parallelizable. Our algorithm obtains a policy which outperforms the solution found by dynamic programming both quantitatively and qualitatively.

The success of machine learning, particularly in supervised settings, has led to numerous attempts to apply it in adversarial settings such as spam and malware detection. The core challenge in this class of applications is that adversaries are not static data generators, but make a deliberate effort to evade the classifiers deployed to detect them. We investigate both the problem of modeling the objectives of such adversaries, as well as the algorithmic problem of accounting for rational, objective-driven adversaries. In particular, we demonstrate severe shortcomings of feature reduction in adversarial settings using several natural adversarial objective functions, an observation that is particularly pronounced when the adversary is able to substitute across similar features (for example, replace words with synonyms or replace letters in words). We offer a simple heuristic method for making learning more robust to feature cross-substitution attacks. We then present a more general approach based on mixed-integer linear programming with constraint generation, which implicitly trades off overfitting and feature selection in an adversarial setting using a sparse regularizer along with an evasion model. Our approach is the first method for combining an adversarial classification algorithm with a very general class of models of adversarial classifier evasion. We show that our algorithmic approach significantly outperforms state-of-the-art alternatives.

The Generic Viewpoint Assumption (GVA) states that the position of the viewer or the light in a scene is not special. Thus, any estimated parameters from an observation should be stable under small perturbations such as object, viewpoint or light positions. The GVA has been analyzed and quantified in previous works, but has not been put to practical use in actual vision tasks. In this paper, we show how to utilize the GVA to estimate shape and illumination from a single shading image, without the use of other priors. We propose a novel linearized Spherical Harmonics (SH) shading model which enables us to obtain a computationally efficient form of the GVA term. Together with a data term, we build a model whose unknowns are shape and SH illumination. The model parameters are estimated using the Alternating Direction Method of Multipliers embedded in a multi-scale estimation framework. In this prior-free framework, we obtain competitive shape and illumination estimation results under a variety of models and lighting conditions, requiring fewer assumptions than competing methods.

Blind source separation problems are difficult because they are inherently unidentifiable, yet the entire goal is to identify meaningful sources. We introduce a way of incorporating domain knowledge into this problem, called signal aggregate constraints (SACs). SACs encourage the total signal for each of the unknown sources to be close to a specified value. This is based on the observation that the total signal often varies widely across the unknown sources, and we often have a good idea of what total values to expect. We incorporate SACs into an additive factorial hidden Markov model (AFHMM) to formulate the energy disaggregation problems where only one mixture signal is assumed to be observed. A convex quadratic program for approximate inference is employed for recovering those source signals. On a real-world energy disaggregation data set, we show that the use of SACs dramatically improves the original AFHMM, and significantly improves over a recent state-of-the-art approach.

We introduce a convolutional neural network that operates directly on graphs. These networks allow end-to-end learning of prediction pipelines whose inputs are graphs of arbitrary size and shape. The architecture we present generalizes standard molecular feature extraction methods based on circular fingerprints. We show that these data-driven features are more interpretable, and have better predictive performance on a variety of tasks.