Alexandru Niculescu-Mizil

Topic-link LDA: joint models of topic and author community

Given a large-scale linked document collection, such as a collection of blog posts or a research literature archive, there are two fundamental problems that have generated a lot of interest in the research community. One is to identify a set of high-level topics covered by the documents in the collection; the other is to uncover and analyze the social network of the authors of the documents. So far these problems have been viewed as separate problems and considered independently from each other. In this paper we argue that these two problems are in fact inter-dependent and should be addressed together. We develop a Bayesian hierarchical approach that performs topic modeling and author community discovery in one unified framework. The effectiveness of our model is demonstrated on two blog data sets in different domains and one research paper citation data from CiteSeer.

Spatial-temporal causal modeling for climate change attribution

Attribution of climate change to causal factors has been based predominantly on simulations using physical climate models, which have inherent limitations in describing such a complex and chaotic system. We propose an alternative, data centric, approach that relies on actual measurements of climate observations and human and natural forcing factors. Specifically, we develop a novel method to infer causality from spatial-temporal data, as well as a procedure to incorporate extreme value modeling into our method in order to address the attribution of extreme climate events, such as heatwaves. Our experimental results on a real world dataset indicate that changes in temperature are not solely accounted for by solar radiance, but attributed more significantly to CO2 and other greenhouse gases. Combined with extreme value modeling, we also show that there has been a significant increase in the intensity of extreme temperatures, and that such changes in extreme temperature are also attributable to greenhouse gases. These preliminary results suggest that our approach can offer a useful alternative to the simulation-based approach to climate modeling and attribution, and provide valuable insights from a fresh perspective.

TEMPORAL GRAPHICAL MODELS FOR CROSS-SPECIES GENE REGULATORY NETWORK DISCOVERY

Many genes and biological processes function in similar ways across different species. Cross-species gene expression analysis, as a powerful tool to characterize the dynamical properties of the cell, has found a number of applications, such as identifying a conserved core set of cell cycle genes. However, to the best of our knowledge, there is limited effort on developing appropriate techniques to capture the causality relations between genes from time-series microarray data across species. In this paper, we present hidden Markov random field regression with L(1) penalty to uncover the regulatory network structure for different species. The algorithm provides a framework for sharing information across species via hidden component graphs and is able to incorporate domain knowledge across species easily. We demonstrate our method on two synthetic datasets and apply it to discover causal graphs from innate immune response data.