In this paper, we consider Tipping's relevance vector machine (RVM)

Low rank approximation techniques are widespread in pattern recognition research -- they include Latent Semantic Analysis (LSA), Probabilistic LSA, Principal Components Analysus (PCA), the Generative Aspect Model, and many forms of bibliometric analysis. All make use of a low-dimensional manifold onto which data are projected. Such techniques are generally "unsupervised," which allows them to model data in the absence of labels or categories. With many practical problems, however, some prior knowledge is available in the form of context. In this paper, I describe a principled approach to incorporating such information, and demonstrate its application to PCA-based approximations of several data sets. 1 Introduction Many practical problems involve modeling large, high-dimensional data sets to uncover similarities or latent structure.

We consider the problem of multi-step ahead prediction in time series analysis using the nonparametric Gaussian process model.

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.

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.

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.

The information bottleneck (IB) method is an information-theoretic formulation for clustering problems.

Recently the Fisher score (or the Fisher kernel) is increasingly used as a feature extractor for classification problems. The Fisher score is a vector of parameter derivatives of loglikelihood of a probabilistic model. This paper gives a theoretical analysis about how class information is preserved inthe space of the Fisher score, which turns out that the Fisher score consists of a few important dimensions with class information and many nuisance dimensions. When we perform clustering with the Fisher score, K-Means type methods are obviously inappropriate because they make use of all dimensions. So we will develop a novel but simple clustering algorithmspecialized for the Fisher score, which can exploit important dimensions.This algorithm is successfully tested in experiments with artificial data and real data (amino acid sequences).

We propose a framework for classifier design based on discriminative densities for representation of the differences of the class-conditional distributions ina way that is optimal for classification. The densities are selected from a parametrized set by constrained maximization of some objective function which measures the average (bounded) difference, i.e. the contrast between discriminative densities. We show that maximization ofthe contrast is equivalent to minimization of an approximation of the Bayes risk.