Learning in a multiagent system is a challenging problem due to two key factors. First, if other agents are simultaneously learning then the environment is no longer stationary, thus undermining convergence guarantees. Second, learning is often susceptible to deception, where the other agents may be able to exploit a learner's particular dynamics. In the worst case, this could result in poorer performance than if the agent was not learning at all. These challenges are identifiable in the two most common evaluation criteria for multiagent learning algorithms: convergence and regret.

We formulate the problem of graph inference where part of the graph is known as a supervised learning problem, and propose an algorithm to solve it. The method involves the learning of a mapping of the vertices to a Euclidean space where the graph is easy to infer, and can be formulated as an optimization problem in a reproducing kernel Hilbert space. We report encouraging results on the problem of metabolic network reconstruction from genomic data.

We address the problem of identifying specific instances of a class (cars) from a set of images all belonging to that class. Although we cannot build a model for any particular instance (as we may be provided with only one "training" example of it), we can use information extracted from observing other members of the class. We pose this task as a learning problem, in which the learner is given image pairs, labeled as matching or not, and must discover which image features are most consistent for matching instances and discriminative for mismatches. We explore a patch based representation, where we model the distributions of similarity measurements defined on the patches. Finally, we describe an algorithm that selects the most salient patches based on a mutual information criterion. This algorithm performs identification well for our challenging dataset of car images, after matching only a few, well chosen patches.

We present an algorithm based on convex optimization for constructing kernels for semi-supervised learning. The kernel matrices are derived from the spectral decomposition of graph Laplacians, and combine labeled and unlabeled data in a systematic fashion. Unlike previous work using diffusion kernels and Gaussian random field kernels, a nonparametric kernel approach is presented that incorporates order constraints during optimization. This results in flexible kernels and avoids the need to choose among different parametric forms. Our approach relies on a quadratically constrained quadratic program (QCQP), and is computationally feasible for large datasets. We evaluate the kernels on real datasets using support vector machines, with encouraging results.

The formation of disulphide bridges among cysteines is an important feature of protein structures. Here we develop new methods for the prediction of disulphide bond connectivity. We first build a large curated data set of proteins containing disulphide bridges and then use 2-Dimensional Recursive Neural Networks to predict bonding probabilities between cysteine pairs. These probabilities in turn lead to a weighted graph matching problem that can be addressed efficiently. We show how the method consistently achieves better results than previous approaches on the same validation data. In addition, the method can easily cope with chains with arbitrary numbers of bonded cysteines. Therefore, it overcomes one of the major limitations of previous approaches restricting predictions to chains containing no more than 10 oxidized cysteines. The method can be applied both to situations where the bonded state of each cysteine is known or unknown, in which case bonded state can be predicted with 85% precision and 90% recall. The method also yields an estimate for the total number of disulphide bridges in each chain.

Theories of access consciousness address how it is that some mental states but not others are available for evaluation, choice behavior, and verbal report. Farah, O'Reilly, and Vecera (1994) argue that quality of representation is critical; Dehaene, Sergent, and Changeux (2003) argue that the ability to communicate representations is critical. We present a probabilistic information transmission or PIT model that suggests both of these conditions are essential for access consciousness. Having successfully modeled data from the repetition priming literature in the past, we use the PIT model to account for data from two experiments on subliminal priming, showing that the model produces priming even in the absence of accessibility and reportability of internal states. The model provides a mechanistic basis for understanding the dissociation of priming and awareness. Philosophy has made many attempts to identify distinct aspects of consciousness. Perhaps the most famous effort is Block's (1995) delineation of phenomenal and access consciousness. Phenomenal consciousness has to do with "what it is like" to experience chocolate or a pin prick. Access consciousness refers to internal states whose content is "(1) inferentially promiscuous, i.e., poised to be used as a premise in reasoning, (2) poised for control of action, and (3) poised for rational control of speech."

We relate the algorithm to the stochastic approximation literature. This enables us to specify conditions under which the algorithm is guaranteed to converge to the optimal solution (with probability 1). This includes necessary and sufficient conditions for the solution to be unbiased.

While clustering is usually an unsupervised operation, there are circumstances in which we believe (with varying degrees of certainty) that items A and B should be assigned to the same cluster, while items A and C should not. We would like such pairwise relations to influence cluster assignments of out-of-sample data in a manner consistent with the prior knowledge expressed in the training set. Our starting point is probabilistic clustering based on Gaussian mixture models (GMM) of the data distribution. We express clustering preferences in the prior distribution over assignments of data points to clusters. This prior penalizes cluster assignments according to the degree with which they violate the preferences. We fit the model parameters with EM. Experiments on a variety of data sets show that PPC can consistently improve clustering results.

We describe how we used a data set of chorale harmonisations composed by Johann Sebastian Bach to train Hidden Markov Models. Using a probabilistic framework allows us to create a harmonisation system which learns from examples, and which can compose new harmonisations. We make a quantitative comparison of our system's harmonisation performance against simpler models, and provide example harmonisations.

We consider the problem of recovering an underwater image distorted by surface waves. A large amount of video data of the distorted image is acquired. The problem is posed in terms of finding an undistorted image patch at each spatial location. This challenging reconstruction task can be formulated as a manifold learning problem, such that the center of the manifold is the image of the undistorted patch. To compute the center, we present a new technique to estimate global distances on the manifold. Our technique achieves robustness through convex flow computations and solves the "leakage" problem inherent in recent manifold embedding techniques.