Scalable and Sustainable Deep Learning via Randomized Hashing

Current deep learning architectures are growing larger in order to learn from complex datasets. These architectures require giant matrix multiplication operations to train millions of parameters. Conversely, there is another growing trend to bring deep learning to low-power, embedded devices. The matrix operations, associated with both training and testing of deep networks, are very expensive from a computational and energy standpoint. We present a novel hashing based technique to drastically reduce the amount of computation needed to train and test deep networks. Our approach combines recent ideas from adaptive dropouts and randomized hashing for maximum inner product search to select the nodes with the highest activation efficiently. Our new algorithm for deep learning reduces the overall computational cost of forward and back-propagation by operating on significantly fewer (sparse) nodes. As a consequence, our algorithm uses only 5% of the total multiplications, while keeping on average within 1% of the accuracy of the original model. A unique property of the proposed hashing based back-propagation is that the updates are always sparse. Due to the sparse gradient updates, our algorithm is ideally suited for asynchronous and parallel training leading to near linear speedup with increasing number of cores. We demonstrate the scalability and sustainability (energy efficiency) of our proposed algorithm via rigorous experimental evaluations on several real datasets

Personalized PageRank on Evolving Graphs with an Incremental Index-Update Scheme

{\em Personalized PageRank (PPR)} stands as a fundamental proximity measure in graph mining. Since computing an exact SSPPR query answer is prohibitive, most existing solutions turn to approximate queries with guarantees. The state-of-the-art solutions for approximate SSPPR queries are index-based and mainly focus on static graphs, while real-world graphs are usually dynamically changing. However, existing index-update schemes can not achieve a sub-linear update time. Motivated by this, we present an efficient indexing scheme to maintain indexed random walks in expected $O(1)$ time after each graph update. To reduce the space consumption, we further propose a new sampling scheme to remove the auxiliary data structure for vertices while still supporting $O(1)$ index update cost on evolving graphs. Extensive experiments show that our update scheme achieves orders of magnitude speed-up on update performance over existing index-based dynamic schemes without sacrificing the query efficiency

The EM Algorithm and the Rise of Computational Biology

In the past decade computational biology has grown from a cottage industry with a handful of researchers to an attractive interdisciplinary field, catching the attention and imagination of many quantitatively-minded scientists. Of interest to us is the key role played by the EM algorithm during this transformation. We survey the use of the EM algorithm in a few important computational biology problems surrounding the "central dogma"; of molecular biology: from DNA to RNA and then to proteins. Topics of this article include sequence motif discovery, protein sequence alignment, population genetics, evolutionary models and mRNA expression microarray data analysis.Comment: Published in at http://dx.doi.org/10.1214/09-STS312 the Statistical Science (http://www.imstat.org/sts/) by the Institute of Mathematical Statistics (http://www.imstat.org

Graphical Log-linear Models: Fundamental Concepts and Applications

We present a comprehensive study of graphical log-linear models for contingency tables. High dimensional contingency tables arise in many areas such as computational biology, collection of survey and census data and others. Analysis of contingency tables involving several factors or categorical variables is very hard. To determine interactions among various factors, graphical and decomposable log-linear models are preferred. First, we explore connections between the conditional independence in probability and graphs; thereafter we provide a few illustrations to describe how graphical log-linear model are useful to interpret the conditional independences between factors. We also discuss the problem of estimation and model selection in decomposable models