Recently, supervised dimensionality reduction has been gaining attention, owing to the realization that data labels are often available and strongly suggest important underlying structures in the data. In this paper, we present a novel convex supervised dimensionality reduction approach based on exponential family PCA and provide a simple but novel form to project new testing data into the embedded space. This convex approach successfully avoids the local optima of the EM learning. Moreover, by introducing a sample-based multinomial approximation to exponential family models, it avoids the limitation of the prevailing Gaussian assumptions of standard PCA, and produces a kernelized formulation for nonlinear supervised dimensionality reduction. A training algorithm is then devised based on a subgradient bundle method, whose scalability can be gained through a coordinate descent procedure. The advantage of our global optimization approach is demonstrated by empirical results over both synthetic and real data.

EEG connectivity measures could provide a new type of feature space for inferring a subject's intention in Brain-Computer Interfaces (BCIs). However, very little is known on EEG connectivity patterns for BCIs. In this study, EEG connectivity during motor imagery (MI) of the left and right is investigated in a broad frequency range across the whole scalp by combining Beamforming with Transfer Entropy and taking into account possible volume conduction effects. Observed connectivity patterns indicate that modulation intentionally induced by MI is strongest in the gamma-band, i.e., above 35 Hz. Furthermore, modulation between MI and rest is found to be more pronounced than between MI of different hands. This is in contrast to results on MI obtained with bandpower features, and might provide an explanation for the so far only moderate success of connectivity features in BCIs. It is concluded that future studies on connectivity based BCIs should focus on high frequency bands and consider experimental paradigms that maximally vary cognitive demands between conditions.

Accounts of how people learn functional relationships between continuous variables have tended to focus on two possibilities: that people are estimating explicit functions, or that they are simply performing associative learning supported by similarity. We provide a rational analysis of function learning, drawing on work on regression in machine learning and statistics. Using the equivalence of Bayesian linear regression and Gaussian processes, we show that learning explicit rules and using similarity can be seen as two views of one solution to this problem. We use this insight to define a Gaussian process model of human function learning that combines the strengths of both approaches.

We consider the problem of binary classification where the classifier may abstain instead of classifying each observation. The Bayes decision rule for this setup, known as Chow's rule, is defined by two thresholds on posterior probabilities. From simple desiderata, namely the consistency and the sparsity of the classifier, we derive the double hinge loss function that focuses on estimating conditional probabilities only in the vicinity of the threshold points of the optimal decision rule. We show that, for suitable kernel machines, our approach is universally consistent. We cast the problem of minimizing the double hinge loss as a quadratic program akin to the standard SVM optimization problem and propose an active set method to solve it efficiently. We finally provide preliminary experimental results illustrating the interest of our constructive approach to devising loss functions.

We propose an efficient sequential Monte Carlo inference scheme for the recently proposed coalescent clustering model (Teh et al, 2008). Our algorithm has a quadratic runtime while those in (Teh et al, 2008) is cubic. In experiments, we were surprised to find that in addition to being more efficient, it is also a better sequential Monte Carlo sampler than the best in (Teh et al, 2008), when measured in terms of variance of estimated likelihood and effective sample size.

Large networks of spiking neurons show abrupt changes in their collective dynamics resemblingphase transitions studied in statistical physics. An example of this phenomenon is the transition from irregular, noise-driven dynamics to regular, self-sustainedbehavior observed in networks of integrate-and-fire neurons as the interaction strength between the neurons increases. In this work we show how a network of spiking neurons is able to self-organize towards a critical state for which the range of possible inter-spike-intervals (dynamic range) is maximized. Self-organization occurs via synaptic dynamics that we analytically derive. The resulting plasticity rule is defined locally so that global homeostasis near the critical stateis achieved by local regulation of individual synapses.

We tackle the computational problem of query-conditioned search. Given a machine-learned scoring rule and a query distribution, we build a predictive index by precomputing lists of potential results sorted based on an expected score of the result over future queries. The predictive index datastructure supports an anytime algorithm for approximate retrieval of the top elements. The general approach is applicable to webpage ranking, internet advertisement, and approximate nearest neighbor search. It is particularly effective in settings where standard techniques (e.g., inverted indices) are intractable. We experimentally find substantial improvement over existing methods for internet advertisement and approximate nearest neighbors.

In this paper we propose a new incremental spike sorting model that automatically eliminates refractory period violations, accounts for action potential waveform drift, and can handle appearance" and "disappearance" of neurons. Our approach is to augment a known time-varying Dirichlet process that ties together a sequence of infinite Gaussian mixture models, one per action potential waveform observation, with an interspike-interval-dependent likelihood that prohibits refractory period violations. We demonstrate this model by showing results from sorting two publicly available neural data recordings for which the a partial ground truth labeling is known."

Continuous attractor neural networks (CANNs) are emerging as promising models for describing the encoding of continuous stimuli in neural systems. Due to the translational invariance of their neuronal interactions, CANNs can hold a continuous family of neutrally stable states. In this study, we systematically explore how neutral stability of a CANN facilitates its tracking performance, a capacity believed to have wide applications in brain functions. We develop a perturbative approach that utilizes the dominant movement of the network stationary states in the state space. We quantify the distortions of the bump shape during tracking, and study their effects on the tracking performance. Results are obtained on the maximum speed for a moving stimulus to be trackable, and the reaction time to catch up an abrupt change in stimulus.

Metal binding is important for the structural and functional characterization of proteins. Previous prediction efforts have only focused on bonding state, i.e. deciding which protein residues act as metal ligands in some binding site. Identifying the geometry of metal-binding sites, i.e. deciding which residues are jointly involved in the coordination of a metal ion is a new prediction problem that has been never attempted before from protein sequence alone. In this paper, we formulate it in the framework of learning with structured outputs. Our solution relies on the fact that, from a graph theoretical perspective, metal binding has the algebraic properties of a matroid, enabling the application of greedy algorithms for learning structured outputs. On a data set of 199 non-redundant metalloproteins, we obtained precision/recall levels of 75\%/46\% correct ligand-ion assignments, which improves to 88\%/88\% in the setting where the metal binding state is known.