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SIMAGE: SImulation of DNA-MicroArray Gene Expression data

Albers, Casper J.; Jansen, Ritsert C.; Kok, Jan; Kuipers, Oscar P. and van Hijum, Sacha A.F.T. (2006). SIMAGE: SImulation of DNA-MicroArray Gene Expression data. BMC Bioinformatics, 7(205)

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URL: http://www.biomedcentral.com/1471-2105/7/205
DOI (Digital Object Identifier) Link: http://dx.doi.org/10.1186/1471-2105-7-205
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Abstract

Background:
Simulation of DNA-microarray data serves at least three purposes: (i) optimizing the design of an intended DNA microarray experiment, (ii) comparing existing pre-processing and processing methods for best analysis of a given DNA microarray experiment, (iii) educating students, lab-workers and other researchers by making them aware of the many factors influencing DNA microarray experiments.
Results:
Our model has multiple layers of factors influencing the experiment. The relative influence of such factors can differ significantly between labs, experiments within labs, etc. Therefore, we have added a module to roughly estimate their parameters from a given data set. This guarantees that our simulated data mimics real data as closely as possible.
Conclusions:
We introduce a model for the simulation of dual-dye cDNA-microarray data closely resembling real data and coin the model and its software implementation SIMAGE which stands for simulation of microarray gene expression data. The software is freely accessible at: http://bioinformatics.biol.rug.nl/websoftware/simage

Item Type: Journal Article
ISSN: 1471-2105
Academic Unit/Department: Mathematics, Computing and Technology
Item ID: 2444
Depositing User: Casper Albers
Date Deposited: 12 Jun 2006
Last Modified: 04 Dec 2010 05:13
URI: http://oro.open.ac.uk/id/eprint/2444
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