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Operational criteria for selecting a cDNA microarray data normalization algorithm
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Medicinska och farmaceutiska vetenskapsområdet, centrumbildningar mm , Ludwig Institute for Cancer Research.
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2006 (English)In: Oncology Reports, ISSN 1021-335X, Vol. 15, no 4, 983-996 p.Article in journal (Refereed) Published
Abstract [en]

Microarray technology allows gene expression profiling at a global level. Many algorithms for the normalization of raw microarray data have been proposed, but no attempt has yet been made to propose operationally verifiable criteria for their comparative evaluation, which is necessary for the selection of the most appropriate method for a given dataset. This study develops a set of operational criteria for assessing the impact of various normalization algorithms in terms of accuracy (bias), precision (variance) and over-fitting (information reduction). The use of these criteria is illustrated by applying the three most widely used algorithms (global median normalization, spiked-in based normalization and lowess) on a specifically designed, multiply-controlled dataset.

Place, publisher, year, edition, pages
2006. Vol. 15, no 4, 983-996 p.
Keyword [en]
Algorithms, Gene Expression Profiling/*statistics & numerical data, Humans, Oligonucleotide Array Sequence Analysis, Reproducibility of Results, Research Support; Non-U.S. Gov't, Sensitivity and Specificity
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Medical and Health Sciences
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URN: urn:nbn:se:uu:diva-80950PubMedID: 16525688OAI: oai:DiVA.org:uu-80950DiVA: diva2:108864
Available from: 2006-07-05 Created: 2006-07-05 Last updated: 2011-02-28Bibliographically approved

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PubMedhttp://www.spandidos-publications.com/or/15/4/983

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Moustakas, Aristidis

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