articleComputer applications in the biosciencesJan 18, 2005BRONZE OA

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

GKGordon K. SmythJMJean MichaudHSHamish S. Scott

Walter and Eliza Hall Institute of Medical Research

PubMed
Indexed incrossrefpubmed

Abstract

MOTIVATION: Spotted arrays are often printed with probes in duplicate or triplicate, but current methods for assessing differential expression are not able to make full use of the resulting information. The usual practice is to average the duplicate or triplicate results for each probe before assessing differential expression. This results in the loss of valuable information about genewise variability. RESULTS: A method is proposed for extracting more information from within-array replicate spots in microarray experiments by estimating the strength of the correlation between them. The method involves fitting separate linear models to the expression data for each gene but with a common value for the…

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Topics & keywords

Topics
Keywords
  • Replicate
  • Bayes' theorem
  • Computer science
  • Inference
  • Gene chip analysis
  • Calibration
  • Differential (mechanical device)
  • Data mining
UN Sustainable Development Goals
  • Reduced inequalities
  • Peace, Justice and strong institutions
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