Semiparametric RMA background-correction for oligonucleotide arrays

Ionut Bebu; Françoise Seillier-Moiseiwitsch; Hongfang Liu

doi:10.1109/BIBE.2007.4375756

Semiparametric RMA background-correction for oligonucleotide arrays

Ionut Bebu, Françoise Seillier-Moiseiwitsch, Hongfang Liu

Quantitative Health Sciences

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

1 Scopus citations

Abstract

Microarray technology has provided an opportunity to simultaneously monitor the expression levels of a large number of genes in response to intentional perturbations. A necessary step towards successful use of microarray technology is background correction which aims to remove noise. One of the most popular algorithms for background correction is the Robust Multichip Average (RMA) procedure which relies on an unjustified parametric assumption. In this paper we first check the fitness of the RMA model using a graphical approach and then propose a new background correction method based on a semiparametric RMA model (semi-RMA). Evaluation of the proposed approach based on spike-in data and MAQC (Microarray Quality Control project) data shows our semi-RMA model provides a better fit to microarray data than other approaches.

Original language	English (US)
Title of host publication	Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE
Pages	1404-1408
Number of pages	5
DOIs	https://doi.org/10.1109/BIBE.2007.4375756
State	Published - Dec 1 2007
Event	7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE - Boston, MA, United States Duration: Jan 14 2007 → Jan 17 2007

Publication series

Name	Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE

Other

Other	7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE
Country/Territory	United States
City	Boston, MA
Period	1/14/07 → 1/17/07

ASJC Scopus subject areas

Biotechnology
Genetics
Bioengineering

Access to Document

10.1109/BIBE.2007.4375756

Cite this

Bebu, I., Seillier-Moiseiwitsch, F., & Liu, H. (2007). Semiparametric RMA background-correction for oligonucleotide arrays. In Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE (pp. 1404-1408). [4375756] (Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE). https://doi.org/10.1109/BIBE.2007.4375756

Semiparametric RMA background-correction for oligonucleotide arrays. / Bebu, Ionut; Seillier-Moiseiwitsch, Françoise; Liu, Hongfang.
Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE. 2007. p. 1404-1408 4375756 (Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Bebu, I, Seillier-Moiseiwitsch, F & Liu, H 2007, Semiparametric RMA background-correction for oligonucleotide arrays. in Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE., 4375756, Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE, pp. 1404-1408, 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE, Boston, MA, United States, 1/14/07. https://doi.org/10.1109/BIBE.2007.4375756

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Semiparametric RMA background-correction for oligonucleotide arrays

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