Brief. Bioinformatics - Affymetrix GeneChip microarray preprocessing for multivariate analyses.

Tópicos

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Resumo

Affymetrix GeneChip microarrays are the most widely used high-throughput technology to measure gene expression, and a wide variety of preprocessing methods have been developed to transform probe intensities reported by a microarray scanner into gene expression estimates. There have been numerous comparisons of these preprocessing methods, focusing on the most common analyses-detection of differential expression and gene or sample clustering. Recently, more complex multivariate analyses, such as gene co-expression, differential co-expression, gene set analysis and network modeling, are becoming more common; however, the same preprocessing methods are typically applied. In this article, we examine the effect of preprocessing methods on some of these multivariate analyses and provide guidance to the user as to which methods are most appropriate.

Resumo Limpo

affymetrix genechip microarray wide use highthroughput technolog measur gene express wide varieti preprocess method develop transform probe intens report microarray scanner gene express estim numer comparison preprocess method focus common analysesdetect differenti express gene sampl cluster recent complex multivari analys gene coexpress differenti coexpress gene set analysi network model becom common howev preprocess method typic appli articl examin effect preprocess method multivari analys provid guidanc user method appropri

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