We present an algorithm to extract features from high-dimensional gene expression profiles, based on the knowledge of a graph which links together genesknown to participate to successive reactions in metabolic pathways. Motivated by the intuition that biologically relevant features are likely to exhibit smoothness with respect to the graph topology, the algorithm involves encoding the graph and the set of expression profiles intokernel functions, and performing a generalized form of canonical correlation analysis in the corresponding reproducible kernel Hilbert spaces. Functionprediction experiments for the genes of the yeast S. Cerevisiae validate this approach by showing a consistent increase in performance when a state-of-the-art classifier uses the vector of features instead of the original expression profile to predict the functional class of a gene.

A neurotrophic model for the co-development of topography and ocular dominance columns in the primary visual cortex has recently been proposed. Inthe present work, we test this model by driving it with the output of a pair of neuronal vision sensors stimulated by disparate moving patterns.We show that the temporal correlations in the spike trains generated by the two sensors elicit the development of refined topography andocular dominance columns, even in the presence of significant amounts of spontaneous activity and fixed-pattern noise in the sensors.

The distributional principle according to which morphemes that occur in identical contexts belong, in some sense, to the same category [1] has been advanced as a means for extracting syntactic structures from corpus data. We extend this principle by applying it recursively, and by using mutualinformation for estimating category coherence. The resulting model learns, in an unsupervised fashion, highly structured, distributed representations of syntactic knowledge from corpora. It also exhibits promising behavior in tasks usually thought to require representations anchored in a grammar, such as systematicity.

Here we derive optimal gain functions for minimum mean square reconstruction fromneural rate responses subjected to Poisson noise. The shape of these functions strongly depends on the length T of the time window within which spikes are counted in order to estimate the underlying firingrate. A phase transition towards pure binary encoding occurs if the maximum mean spike count becomes smaller than approximately three provided the minimum firing rate is zero. For a particular function class, we were able to prove the existence of a second-order phase transition analytically.The critical decoding time window length obtained from the analytical derivation is in precise agreement with the numerical results. We conclude that under most circumstances relevant to information processingin the brain, rate coding can be better ascribed to a binary (low-entropy) code than to the other extreme ofrich analog coding. 1 Optimal neuronal gain functions for short decoding time windows The use of action potentials (spikes) as a means of communication is the striking feature of neurons in the central nervous system.

Multiagent learning is a key problem in AI. In the presence of multiple Nashequilibria, even agents with non-conflicting interests may not be able to learn an optimal coordination policy. The problem is exaccerbated ifthe agents do not know the game and independently receive noisy payoffs. So, multiagent reinforfcement learning involves two interrelated problems:identifying the game and learning to play.

Identity uncertainty is a pervasive problem in real-world data analysis. It arises whenever objects are not labeled with unique identifiers or when those identifiers may not be perceived perfectly. In such cases, two observations mayor may not correspond to the same object. In this paper, we consider the problem in the context of citation matching--the problem ofdeciding which citations correspond to the same publication. Our approach is based on the use of a relational probability model to define a generative model for the domain, including models of author and title corruption and a probabilistic citation grammar. Identity uncertainty is handled by extending standard models to incorporate probabilities over the possible mappings between terms in the language and objects in the domain. Inference is based on Markov chain Monte Carlo, augmented with specific methods for generating efficient proposals when the domain contains many objects. Results on several citation data sets show that the method outperforms current algorithms for citation matching. The declarative, relational nature of the model also means that our algorithm can determine object characteristics such as author names by combining multiple citations of multiple papers.

Classification trees are one of the most popular types of classifiers, with ease of implementation and interpretation being among their attractive features. Despite the widespread use of classification trees, theoretical analysis of their performance is scarce. In this paper, we show that a new family of classification trees, called dyadic classification trees (DCTs), are near optimal (in a minimax sense) for a very broad range of classification problems.This demonstrates that other schemes (e.g., neural networks, support vector machines) cannot perform significantly better than DCTs in many cases. We also show that this near optimal performance isattained with linear (in the number of training data) complexity growing and pruning algorithms. Moreover, the performance of DCTs on benchmark datasets compares favorably to that of standard CART, which is generally more computationally intensive and which does not possess similar near optimality properties. Our analysis stems from theoretical resultson structural risk minimization, on which the pruning rule for DCTs is based.

In [1] we introduced a linear statistical model of joint color changes in images due to variation in lighting and certain non-geometric camera parameters.

We describe a probabilistic approach to the task of placing objects, described byhigh-dimensional vectors or by pairwise dissimilarities, in a low-dimensional space in a way that preserves neighbor identities. A Gaussian is centered on each object in the high-dimensional space and the densities under this Gaussian (or the given dissimilarities) are used to define a probability distribution over all the potential neighbors of the object. The aim of the embedding is to approximate this distribution aswell as possible when the same operation is performed on the low-dimensional "images" of the objects. A natural cost function is a sum of Kullback-Leibler divergences, one per object, which leads to a simple gradient for adjusting the positions of the low-dimensional images. Unlikeother dimensionality reduction methods, this probabilistic framework makes it easy to represent each object by a mixture of widely separated low-dimensional images. This allows ambiguous objects, like the document count vector for the word "bank", to have versions close to the images of both "river" and "finance" without forcing the images of outdoor concepts to be located close to those of corporate concepts.

A/ D converters, What creates additional area and power overhead. The third row in Table 1 corresponds to the chip presented here.