We investigate data based procedures for selecting the kernel when learning with Support Vector Machines. We provide generalization error bounds by estimating the Rademacher complexities of the corresponding function classes. In particular we obtain a complexity bound for function classes induced by kernels with given eigenvectors, i.e., we allow to vary the spectrum and keep the eigenvectors fix. This bound is only a logarithmic factor bigger than the complexity of the function class induced by a single kernel. However, optimizing the margin over such classes leads to overfitting. We thus propose a suitable way of constraining the class. We use an efficient algorithm to solve the resulting optimization problem, present preliminary experimental results, and compare them to an alignment-based approach.

In this paper we analyze the relationships between the eigenvalues of the m x m Gram matrix K for a kernel k(·,.) We bound the dif between the two spectra and provide a performance bound on kernel peA. 1 Introduction Over recent years there has been a considerable amount of interest in kernel methods for supervised learning (e.g. Support Vector Machines and Gaussian Process predict ion) and for unsupervised learning (e.g. In this paper we study the stability of the subspace of feature space extracted by kernel peA with respect to the sample of size m, and relate this to the feature space that would be extracted in the infinite sample-size limit. This analysis essentially "lifts" into (a potentially infinite dimensional) feature space an analysis which can also be carried out for peA, comparing the k-dimensional eigenspace extracted from a sample covariance matrix and the k-dimensional eigenspace extracted from the population covariance matrix, and comparing the residuals from the k-dimensional compression for the m-sample and the population.

We present an algorithm to extract features from high-dimensional gene expression profiles, based on the knowledge of a graph which links together genes known 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 into kernel functions, and performing a generalized form of canonical correlation analysis in the corresponding reproducible kernel Hilbert spaces. Function prediction 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.

Forward decoding kernel machines (FDKM) combine large-margin classifiers with hidden Markov models (HMM) for maximum a posteriori (MAP) adaptive sequence estimation. State transitions in the sequence are conditioned on observed data using a kernel-based probability model trained with a recursive scheme that deals effectively with noisy and partially labeled data. Training over very large data sets is accomplished using a sparse probabilistic support vector machine (SVM) model based on quadratic entropy, and an online stochastic steepest descent algorithm. For speaker-independent continuous phone recognition, FDKM trained over 177,080 samples of the TlMIT database achieves 80.6% recognition accuracy over the full test set, without use of a prior phonetic language model. 1 Introduction Sequence estimation is at the core of many problems in pattern recognition, most notably speech and language processing. Recognizing dynamic patterns in sequential data requires a set of tools very different from classifiers trained to recognize static patterns in data assumed i.i.d.

We derive multiplicative updates for solving the nonnegative quadratic programming problem in support vector machines (SVMs). The updates have a simple closed form, and we prove that they converge monotonically to the solution of the maximum margin hyperplane. The updates optimize the traditionally proposed objective function for SVMs. They do not involve any heuristics such as choosing a learning rate or deciding which variables to update at each iteration. They can be used to adjust all the quadratic programming variables in parallel with a guarantee of improvement at each iteration. We analyze the asymptotic convergence of the updates and show that the coefficients of nonsupport vectors decay geometrically to zero at a rate that depends on their margins.

We introduce a new learning algorithm for decision lists to allow features that are constructed from the data and to allow a tradeoff between accuracy and complexity. We bound its generalization error in terms of the number of errors and the size of the classifier it finds on the training data. We also compare its performance on some natural data sets with the set covering machine and the support vector machine.

We investigate the problem of learning a classification task for datasets which are described by matrices. Rows and columns of these matrices correspond to objects, where row and column objects may belong to different sets, and the entries in the matrix express the relationships between them. We interpret the matrix elements as being produced by an unknown kernel which operates on object pairs and we show that - under mild assumptions - these kernels correspond to dot products in some (unknown) feature space. Minimizing a bound for the generalization error of a linear classifier which has been obtained using covering numbers we derive an objective function for model selection according to the principle of structural risk minimization. The new objective function has the advantage that it allows the analysis of matrices which are not positive definite, and not even symmetric or square.

We introduce a general family of kernels based on weighted transducers or rational relations, rational kernels, that can be used for analysis of variable-length sequences or more generally weighted automata, in applications such as computational biology or speech recognition. We show that rational kernels can be computed efficiently using a general algorithm of composition of weighted transducers and a general single-source shortest-distance algorithm. We also describe several general families of positive definite symmetric rational kernels. These general kernels can be combined with Support Vector Machines to form efficient and powerful techniques for spoken-dialog classification: highly complex kernels become easy to design and implement and lead to substantial improvements in the classification accuracy. We also show that the string kernels considered in applications to computational biology are all specific instances of rational kernels.

In this paper we present a new algorithm suitable for matching discrete objects such as strings and trees in linear time, thus obviating dynarrtic programming with quadratic time complexity. Furthermore, prediction cost in many cases can be reduced to linear cost in the length of the sequence to be classified, regardless of the number of support vectors. This improvement on the currently available algorithms makes string kernels a viable alternative for the practitioner.

This paper presents two new formulations of multiple-instance learning as a maximum margin problem. The proposed extensions of the Support Vector Machine (SVM) learning approach lead to mixed integer quadratic programs that can be solved heuristically. Our generalization of SVMs makes a state-of-the-art classification technique, including nonlinear classification via kernels, available to an area that up to now has been largely dominated by special purpose methods. We present experimental results on a pharmaceutical data set and on applications in automated image indexing and document categorization.