We explore a new Bayesian model for probabilistic grammars, a family of distributions over discrete structures that includes hidden Markov models and probabilistic context-free grammars. Our model extends the correlated topic model framework to probabilistic grammars, exploiting the logistic normal distribution as a prior over the grammar parameters. We derive a variational EM algorithm for that model, and then experiment with the task of unsupervised grammar induction for natural language dependency parsing. We show that our model achieves superior results over previous models that use different priors.

Neuroimaging datasets often have a very large number of voxels and a very small number of training cases, which means that overfitting of models for this data can become a very serious problem. Working with a set of fMRI images from a study on stroke recovery, we consider a classification task for which logistic regression performs poorly, even when L1-or L2-regularized. We show that much better discrimination can be achieved by fitting a generative model to each separate condition and then seeing which model is most likely to have generated the data. We compare discriminative training of exactly the same set of models, and we also consider convex blends of generative and discriminative training.

Decision making lies at the very heart of many psychiatric diseases. It is also a central theoretical concern in a wide variety of fields and has undergone detailed, in-depth, analyses. We take as an example Major Depressive Disorder (MDD), applying insights from a Bayesian reinforcement learning framework. We focus on anhedonia and helplessness. Helplessness--a core element in the conceptualizations of MDD that has lead to major advances in its treatment, pharmacological and neurobiological understanding--is formalized as a simple prior over the outcome entropy of actions in uncertain environments.

Discriminative tasks, including object categorization and detection, are central components of high-level computer vision. Sometimes, however, we are interested in more refined aspects of the object in an image, such as pose or particular regions. In this paper we develop a method (LOOPS) for learning a shape and image feature model that can be trained on a particular object class, and used to outline instances of the class in novel images. Furthermore, while the training data consists of uncorresponded outlines, the resulting LOOPS model contains a set of landmark points that appear consistently across instances, and can be accurately localized in an image. Our model achieves state-of-the-art results in precisely outlining objects that exhibit large deformations and articulations in cluttered natural images. These localizations can then be used to address a range of tasks, including descriptive classification, search, and clustering.

Is accurate classification possible in the absence of hand-labeled data? This paper introduces the Monotonic Feature (MF) abstraction--where the probability of class membership increases monotonically with the MF's value. The paper proves that when an MF is given, PAC learning is possible with no hand-labeled data under certain assumptions. We argue that MFs arise naturally in a broad range of textual classification applications. On the classic "20 Newsgroups" data set, a learner given an MF and unlabeled data achieves classification accuracy equal to that of a state-of-the-art semi-supervised learner relying on 160 hand-labeled examples. Even when MFs are not given as input, their presence or absence can be determined from a small amount of hand-labeled data, which yields a new semi-supervised learning method that reduces error by 15% on the 20 Newsgroups data.

We explore a new Bayesian model for probabilistic grammars, a family of distributions over discrete structures that includes hidden Markov models and probabilistic context-free grammars. Our model extends the correlated topic model framework to probabilistic grammars, exploiting the logistic normal distribution as a prior over the grammar parameters. We derive a variational EM algorithm for that model, and then experiment with the task of unsupervised grammar induction for natural language dependency parsing. We show that our model achieves superior results over previous models that use different priors.

``How is information decoded in the brain?'' is one of the most difficult and important questions in neuroscience. Whether neural correlation is important or not in decoding neural activities is of special interest. We have developed a general framework for investigating how far the decoding process in the brain can be simplified. First, we hierarchically construct simplified probabilistic models of neural responses that ignore more than $K$th-order correlations by using a maximum entropy principle. Then, we compute how much information is lost when information is decoded using the simplified models, i.e., ``mismatched decoders''. We introduce an information theoretically correct quantity for evaluating the information obtained by mismatched decoders. We applied our proposed framework to spike data for vertebrate retina. We used 100-ms natural movies as stimuli and computed the information contained in neural activities about these movies. We found that the information loss is negligibly small in population activities of ganglion cells even if all orders of correlation are ignored in decoding. We also found that if we assume stationarity for long durations in the information analysis of dynamically changing stimuli like natural movies, pseudo correlations seem to carry a large portion of the information.

Probabilistic topic models (and their extensions) have become popular as models of latent structures in collections of text documents or images. These models are usually treated as generative models and trained using maximum likelihood estimation, an approach which may be suboptimal in the context of an overall classification problem. In this paper, we describe DiscLDA, a discriminative learning framework for such models as Latent Dirichlet Allocation (LDA) in the setting of dimensionality reduction with supervised side information. In DiscLDA, a class-dependent linear transformation is introduced on the topic mixture proportions. This parameter is estimated by maximizing the conditional likelihood using Monte Carlo EM. By using the transformed topic mixture proportions as a new representation of documents, we obtain a supervised dimensionality reduction algorithm that uncovers the latent structure in a document collection while preserving predictive power for the task of classification. We compare the predictive power of the latent structure of DiscLDA with unsupervised LDA on the 20 Newsgroup ocument classification task.

The coding of information by neural populations depends critically on the statistical dependencies between neuronal responses. However, there is no simple model that combines the observations that (1) marginal distributions over single-neuron spike counts are often approximately Poisson; and (2) joint distributions over the responses of multiple neurons are often strongly dependent. Here, we show that both marginal and joint properties of neural responses can be captured using Poisson copula models. Copulas are joint distributions that allow random variables with arbitrary marginals to be combined while incorporating arbitrary dependencies between them. Different copulas capture different kinds of dependencies, allowing for a richer and more detailed description of dependencies than traditional summary statistics, such as correlation coefficients. We explore a variety of Poisson copula models for joint neural response distributions, and derive an efficient maximum likelihood procedure for estimating them. We apply these models to neuronal data collected in and macaque motor cortex, and quantify the improvement in coding accuracy afforded by incorporating the dependency structure between pairs of neurons.

In this paper we present two transductive bounds on the risk of the majority vote estimated over partially labeled training sets. Our first bound is tight when the additional unlabeled training data are used in the cases where the voted classifier makes its errors on low margin observations and where the errors of the associated Gibbs classifier can accurately be estimated. In semi-supervised learning, considering the margin as an indicator of confidence constitutes the working hypothesis of algorithms which search the decision boundary on low density regions. In this case, we propose a second bound on the joint probability that the voted classifier makes an error over an example having its margin over a fixed threshold. As an application we are interested on self-learning algorithms which assign iteratively pseudo-labels to unlabeled training examples having margin above a threshold obtained from this bound. Empirical results on different datasets show the effectiveness of our approach compared to the same algorithm and the TSVM in which the threshold is fixed manually.