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Please use this identifier to cite or link to this item: http://hdl.handle.net/1942/12951

Title: A Nonlinear Mixed-Effects Model for Estimating Calibration Intervals for Unknown Concentrations in Two-Color Microarray Data with Spike-Ins
Authors: Thilakarathne, Pushpike
Verbeke, Geert
Engelen, Kristof
Marchal, Kathleen
Issue Date: 2009
Citation: Statistical Applications in Genetics and Molecular Biology, 8(1)
Abstract: In this study, we propose a calibration method for preprocessing spiked-in microarray experiments based on nonlinear mixed-effects models. This method uses a spike-in calibration curve to estimate normalized absolute expression values. Moreover, using the asymptotic properties of the calibration estimate, 100(1-α)% confidence intervals for the estimated expression values can be constructed. Simulations are used to show that the approximations on which the construction of the confidence intervals are based are sufficiently accurate to reach the desired coverage probabilities. We illustrate applicability of our method, by estimating the normalized absolute expression values together with the corresponding confidence intervals for two publicly available cDNA microarray experiments (Hilson et al., 2004; Smets et al., 2008). This method can easily be adapted to preprocess one-color oligonucleotide microarray data with a slight adjustment to the mixed model.
URI: http://hdl.handle.net/1942/12951
Link to publication: http://www.ncbi.nlm.nih.gov/pubmed/19222388
DOI: 10.2202/1544-6115.1401
ISSN: 1544-6115
Category: A1
Type: Journal Contribution
Appears in Collections: Research publications

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