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Bioinformatics Vol. 18 no. 4 2002
Pages 529-535
© 2002 Oxford University Press

Construction of optimal quality control for oligo arrays

Charles J. Colbourn 1, Alan C. H. Ling 2 and Martin Tompa 3,*

1 Department of Computer Science and Engineering, Arizona State University, Tempe, AZ 85287-5406, USA
2 Department of Computer Science, University of Vermont, Burlington, VT 05405, USA
3 Department of Computer Science and Engineering, Box 352350, University of Washington, Seattle, WA 98195-2350, USA

Received on June 13, 2001 ; revised on November 2, 2001 ; accepted on November 7, 2001

Motivation: Oligo arrays are important experimental tools for the high throughput measurement of gene expression levels. During production of oligo arrays, it is important to identify any faulty manufacturing step.

Results: We describe a practical algorithm for the construction of optimal quality control designs that identify any faulty manufacturing step. The algorithm uses hillclimbing, a search technique from combinatorial optimization. We also present the results of using this algorithm on all practical quality control design sizes.

Availability: On request from the authors.

Contact: tompa{at}cs.washington.edu

* To whom correspondence should be addressed.


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