Statistical analysis of gene expression studies with ordered experimental conditions

SD Peddada, DM Umbach, S Harris - Handbook of statistics, 2012 - Elsevier
In the past decade, the availability of microarray technology for monitoring the expression of
thousands of genes simultaneously has enhanced the ability of scientists to probe …

Sequential design for microarray experiments

G Durrieu, L Briollais - Journal of the American Statistical …, 2009 - Taylor & Francis
This article features online supplementary material. A critical aspect in the design of
microarray studies is the determination of the sample size necessary to declare genes …

A unified mixed effects model for gene set analysis of time course microarray experiments

L Wang, X Chen, RD Wolfinger, JL Franklin… - … in genetics and …, 2009 - degruyter.com
Methods for gene set analysis test for coordinated changes of a group of genes involved in
the same biological process or molecular pathway. Higher statistical power is gained for …

Statistical issues in microarray analysis

C Sabatti - Current Genomics, 2002 - benthamdirect.com
We review a series of statistical issues that arise in the design of a gene-expression array
experiments in the statistical assessment of which genes are differentially expressed and in …

[PDF][PDF] Design and analysis of comparative microarray experiments

YH Yang, TP Speed - Statistical analysis of gene expression …, 2003 - scholar.archive.org
This chapter discusses the design and analysis of relatively simple comparative experiments
involving microarrays. Some of the discussion applies to all the most widely used kinds of …

Microarray data analysis: a practical approach for selecting differentially expressed genes

DM Mutch, A Berger, R Mansourian, A Rytz… - Genome biology, 2001 - Springer
Background The biomedical community is rapidly developing new methods of data analysis
for microarray experiments, with the goal of establishing new standards to objectively …

Transformations, background estimation, and process effects in the statistical analysis of microarrays

K Kafadar, T Phang - Computational statistics & data analysis, 2003 - Elsevier
Microarray technology has made available large data sets that can provide information on
gene expression when cells are subjected to various treatments. Before proceeding with a …

Microarray data analysis: an overview of design, methodology, and analysis

AT Weeraratna, DD Taub - Microarray Data Analysis: Methods and …, 2007 - Springer
Microarray analysis results in the gathering of massive amounts of information concerning
gene expression profiles of different cells and experimental conditions. Analyzing these data …

The analysis of gene expression data: an overview of methods and software

G Parmigiani, ES Garrett, RA Irizarry… - The analysis of gene …, 2003 - Springer
This chapter is a rough map of the book. It provides a concise overview of data-analytic tasks
associated with microarray studies, pointers to chapters that can help perform these tasks …

Identifying differentially expressed genes in cDNA microarray experiments

KA Baggerly, KR Coombes, KR Hess… - Journal of …, 2001 - liebertpub.com
A major goal of microarray experiments is to determine which genes are differentially
expressed between samples. Differential expression has been assessed by taking ratios of …