Journal article

A benchmark for affymetrix GeneChip expression measures

LM Cope, RA Irizarry, HA Jaffee, ZJ Wu, TP Speed

BIOINFORMATICS | OXFORD UNIV PRESS | Published : 2004

Abstract

MOTIVATION: The defining feature of oligonucleotide expression arrays is the use of several probes to assay each targeted transcript. This is a bonanza for the statistical geneticist, who can create probeset summaries with specific characteristics. There are now several methods available for summarizing probe level data from the popular Affymetrix GeneChips, but it is difficult to identify the best method for a given inquiry. RESULTS: We have developed a graphical tool to evaluate summaries of Affymetrix probe level data. Plots and summary statistics offer a picture of how an expression measure performs in several important areas. This picture facilitates the comparison of competing expressi..

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University of Melbourne Researchers