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» A copula method for modeling directional dependence of genes
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CORR
2007
Springer
128views Education» more  CORR 2007»
14 years 9 months ago
Model Selection Through Sparse Maximum Likelihood Estimation
We consider the problem of estimating the parameters of a Gaussian or binary distribution in such a way that the resulting undirected graphical model is sparse. Our approach is to...
Onureena Banerjee, Laurent El Ghaoui, Alexandre d'...
BMCBI
2007
114views more  BMCBI 2007»
14 years 9 months ago
Mining and state-space modeling and verification of sub-networks from large-scale biomolecular networks
Background: Biomolecular networks dynamically respond to stimuli and implement cellular function. Understanding these dynamic changes is the key challenge for cell biologists. As ...
Xiaohua Hu, Fang-Xiang Wu
BIBE
2007
IEEE
127views Bioinformatics» more  BIBE 2007»
15 years 4 months ago
A Heuristic for Phylogenetic Reconstruction Using Transposition
Abstract—Because of the advent of high-throughput sequencing and the consequent reduction in cost of sequencing, many organisms have been completely sequenced and most of their g...
Feng Yue, Meng Zhang, Jijun Tang
ICML
2006
IEEE
15 years 10 months ago
Convex optimization techniques for fitting sparse Gaussian graphical models
We consider the problem of fitting a large-scale covariance matrix to multivariate Gaussian data in such a way that the inverse is sparse, thus providing model selection. Beginnin...
Onureena Banerjee, Laurent El Ghaoui, Alexandre d'...
BMCBI
2010
136views more  BMCBI 2010»
14 years 9 months ago
Bias correction and Bayesian analysis of aggregate counts in SAGE libraries
Background: Tag-based techniques, such as SAGE, are commonly used to sample the mRNA pool of an organism's transcriptome. Incomplete digestion during the tag formation proces...
Russell L. Zaretzki, Michael A. Gilchrist, William...