Publications
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Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments
The problem of identifying differentially expressed genes in designed microarray experiments is considered. Lonnstedt and Speed (2002) derived an expression for the posterior od...
Modularity and community structure in networks
Many networks of interest in the sciences, including social networks, computer networks, and metabolic and regulatory networks, are found to divide naturally into communities or...
Molecular Classification of Cancer: Class Discovery and Class Prediction by Gene Expression Monitoring
Although cancer classification has improved over the past 30 years, there has been no general approach for identifying new cancer classes (class discovery) or for assigning tumo...
Structure, function and diversity of the healthy human microbiome
Studies of the human microbiome have revealed that even healthy individuals differ remarkably in the microbes that occupy habitats such as the gut, skin and vagina. Much of this...
A survey on Image Data Augmentation for Deep Learning
Abstract Deep convolutional neural networks have performed remarkably well on many Computer Vision tasks. However, these networks are heavily reliant on big data to avoid overfi...
Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
ABSTRACT A 16S rRNA gene database ( http://greengenes.lbl.gov ) addresses limitations of public repositories by providing chimera screening, standard alignment, and taxonomic cl...
Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications
The purpose of this study was to classify breast carcinomas based on variations in gene expression patterns derived from cDNA microarrays and to correlate tumor characteristics ...
Significance analysis of microarrays applied to the ionizing radiation response
Microarrays can measure the expression of thousands of genes to identify changes in expression between different biological states. Methods are needed to determine the significa...