Microarray validation: factors influencing correlation between oligonucleotide microarrays and real-time PCR View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2006-12

AUTHORS

Jeanine S. Morey, James C. Ryan, Frances M. Van Dolah

ABSTRACT

Quantitative real-time PCR (qPCR) is a commonly used validation tool for confirming gene expression results obtained from microarray analysis; however, microarray and qPCR data often result in disagreement. The current study assesses factors contributing to the correlation between these methods in five separate experiments employing two-color 60-mer oligonucleotide microarrays and qPCR using SYBR green. Overall, significant correlation was observed between microarray and qPCR results (rho=0.708, p<0.0001, n=277) using these platforms. The contribution of factors including up- vs. down-regulation, spot intensity, rho-value, fold-change, cycle threshold (C(t)), array averaging, tissue type, and tissue preparation was assessed. Filtering of microarray data for measures of quality (fold-change and rho-value) proves to be the most critical factor, with significant correlations of rho>0.80 consistently observed when quality scores are applied. More... »

PAGES

175-193

Identifiers

URI

http://scigraph.springernature.com/pub.10.1251/bpo126

DOI

http://dx.doi.org/10.1251/bpo126

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1007284096

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/17242735


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