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.

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.

We describe a hierarchical, probabilistic model that learns to extract complex motion from movies of the natural environment. The model consists of two hidden layers: the first layer produces a sparse representation of the image that is expressed in terms of local amplitude and phase variables. The second layer learns the higher-order structure among the time-varying phase variables. After training on natural movies, the top layer units discover the structure of phase-shifts within the first layer.

We show how smoother priors can preserve the benefits of these sparse priors while adding stability to the Maximum A-Posteriori (MAP) estimate that makes it more useful for prediction problems. Additionally, we show how to calculate the derivative of the MAP estimate efficiently with implicit differentiation. One prior that can be differentiated this way is KL-regularization. We demonstrate its effectiveness on a wide variety of applications, and find that online optimization of the parameters of the KL-regularized model can significantly improve prediction performance.

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.

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.

We describe a hierarchical, probabilistic model that learns to extract complex motion from movies of the natural environment. The model consists of two hidden layers: the first layer produces a sparse representation of the image that is expressed in terms of local amplitude and phase variables. The second layer learns the higher-order structure among the time-varying phase variables. After training on natural movies, the top layer units discover the structure of phase-shifts within the first layer.

We show how smoother priors can preserve the benefits of these sparse priors while adding stability to the Maximum A-Posteriori (MAP) estimate that makes it more useful for prediction problems. Additionally, we show how to calculate the derivative of the MAP estimate efficiently with implicit differentiation. One prior that can be differentiated this way is KL-regularization. We demonstrate its effectiveness on a wide variety of applications, and find that online optimization of the parameters of the KL-regularized model can significantly improve prediction performance.

``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.