Literature DB >> 22754383

ArrayOU: a web application for microarray data analysis and visualization.

Kaiyu Shen1, Sarah E Wyatt, Vijayanand Nadella.   

Abstract

A web-based microarray data analysis tool, ArrayOU (freely available at www.bioinformatics.plantbio.ohiou.edu.), has been developed at the Ohio University Genomics Facility for the research and education community to analyze Agilent microarray data. Agilent's microarray pipeline has gained in popularity as a result of its ease of use and low cost of customized arrays. The current version of the ArrayOU pipeline allows users to visualize, analyze, and annotate microarray data from commercially available and customized Agilent expression arrays and is extendable for further implementations.

Keywords:  DNA microarrays; pipeline; software

Mesh：

Year:  2012        PMID： 22754383      PMCID： PMC3378286          DOI： 10.7171/jbt.2012-2302-001

Source DB:  PubMed          Journal:  J Biomol Tech        ISSN： 1524-0215


  8 in total

1.  Factorial and time course designs for cDNA microarray experiments.

Authors:  G F V Glonek; P J Solomon
Journal:  Biostatistics       Date:  2004-01       Impact factor: 5.899

2.  Normalization of cDNA microarray data.

Authors:  Gordon K Smyth; Terry Speed
Journal:  Methods       Date:  2003-12       Impact factor: 3.608

3.  Use of within-array replicate spots for assessing differential expression in microarray experiments.

Authors:  Gordon K Smyth; Joëlle Michaud; Hamish S Scott
Journal:  Bioinformatics       Date:  2005-01-18       Impact factor: 6.937

4.  Linear models and empirical bayes methods for assessing differential expression in microarray experiments.

Authors:  Gordon K Smyth
Journal:  Stat Appl Genet Mol Biol       Date:  2004-02-12

5.  A comparison of background correction methods for two-colour microarrays.

Authors:  Matthew E Ritchie; Jeremy Silver; Alicia Oshlack; Melissa Holmes; Dileepa Diyagama; Andrew Holloway; Gordon K Smyth
Journal:  Bioinformatics       Date:  2007-08-25       Impact factor: 6.937

6.  Bioconductor: open software development for computational biology and bioinformatics.

Authors:  Robert C Gentleman; Vincent J Carey; Douglas M Bates; Ben Bolstad; Marcel Dettling; Sandrine Dudoit; Byron Ellis; Laurent Gautier; Yongchao Ge; Jeff Gentry; Kurt Hornik; Torsten Hothorn; Wolfgang Huber; Stefano Iacus; Rafael Irizarry; Friedrich Leisch; Cheng Li; Martin Maechler; Anthony J Rossini; Gunther Sawitzki; Colin Smith; Gordon Smyth; Luke Tierney; Jean Y H Yang; Jianhua Zhang
Journal:  Genome Biol       Date:  2004-09-15       Impact factor: 13.583

7.  Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments.

Authors:  Rainer Breitling; Patrick Armengaud; Anna Amtmann; Pawel Herzyk
Journal:  FEBS Lett       Date:  2004-08-27       Impact factor: 4.124

8.  A comparison of alternative 60-mer probe designs in an in-situ synthesized oligonucleotide microarray.

Authors:  Danielle L Leiske; Anis Karimpour-Fard; Patrick S Hume; Benjamin D Fairbanks; Ryan T Gill
Journal:  BMC Genomics       Date:  2006-04-04       Impact factor: 3.969
  8 in total

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