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Experimental designs for 2‐colour cDNA microarray experiments

Experimental designs for 2‐colour cDNA microarray experiments Kerr and Churchill (Biostatistics 2001; 2:183–201) showed how varieties (e.g. type of tissues, drug treatments, etc.) are paired onto arrays by a catalogue of A‐optimal incomplete block designs (IBDs) for 6–10 varieties (v), and number of blocks of size 2 between v and $ \left(v \atop 2 \right)$. These A‐optimal IBDs were obtained by (i) generating all non‐isomorphic connected graphs on v vertices using Brendan McKay's, MAKEG program (http://cs.anu.edu.au/people/bdm/nauty/) and (ii) comparing all designs of the same size on the basis of A‐optimality to obtain the best ones. In this paper we will give a quick overview on IBDs and describe an algorithmic approach to extend the mentioned catalogue. We aim at IBDs with up to 100 varieties with equal as well as unequal replications. A catalogue of 2007 IBDs is given. We will also extend the concept of even designs in Kerr and Churchill (Biostatistics 2001; 2:183–201) to row‐orthogonal designs. Copyright © 2006 John Wiley & Sons, Ltd. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Applied Stochastic Models in Business and Industry Wiley

Experimental designs for 2‐colour cDNA microarray experiments

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References (18)

Publisher
Wiley
Copyright
Copyright © 2006 John Wiley & Sons, Ltd.
ISSN
1524-1904
eISSN
1526-4025
DOI
10.1002/asmb.654
Publisher site
See Article on Publisher Site

Abstract

Kerr and Churchill (Biostatistics 2001; 2:183–201) showed how varieties (e.g. type of tissues, drug treatments, etc.) are paired onto arrays by a catalogue of A‐optimal incomplete block designs (IBDs) for 6–10 varieties (v), and number of blocks of size 2 between v and $ \left(v \atop 2 \right)$. These A‐optimal IBDs were obtained by (i) generating all non‐isomorphic connected graphs on v vertices using Brendan McKay's, MAKEG program (http://cs.anu.edu.au/people/bdm/nauty/) and (ii) comparing all designs of the same size on the basis of A‐optimality to obtain the best ones. In this paper we will give a quick overview on IBDs and describe an algorithmic approach to extend the mentioned catalogue. We aim at IBDs with up to 100 varieties with equal as well as unequal replications. A catalogue of 2007 IBDs is given. We will also extend the concept of even designs in Kerr and Churchill (Biostatistics 2001; 2:183–201) to row‐orthogonal designs. Copyright © 2006 John Wiley & Sons, Ltd.

Journal

Applied Stochastic Models in Business and IndustryWiley

Published: Sep 1, 2006

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