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On Limits of Performance of DNA Microarrays

Vikalo, H. and Hassibi, B. and Hassibi, A. (2006) On Limits of Performance of DNA Microarrays. In: IEEE International Conference on Acoustic, Speech and Signal Processing (ICASSP 2006), Toulouse, France, 14-19 May 2006. Vol.II. IEEE , Piscataway, NJ, II-1012. ISBN 1-4244-0469-X.

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DNA microarray technology relies on the hybridization process which is stochastic in nature. Probabilistic cross-hybridization of non-specific targets, as well as the shot-noise originating from specific targets binding, are among the many obstacles for achieving high accuracy in DNA microarray analysis. In this paper, we use statistical model of hybridization and cross-hybridization processes to derive a lower bound (viz., the Cramer-Rao bound) on the minimum mean-square error of the target concentrations estimation. A preliminary study of the Cramer-Rao bound for estimating the target concentrations suggests that, in some regimes, cross-hybridization may, in fact, be beneficial—a result with potential ramifications for probe design, which is currently focused on minimizing cross-hybridization.

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Additional Information:© Copyright 2006 IEEE. Reprinted with permission. [Posted online: 2006-07-24] This work was supported in part by the National Science Foundation under grant no. CCR-0133818 and CCR-0326554, by the David and Lucille Packard Foundation, and by Caltech’s Lee Center for Advanced Networking.
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ID Code:9073
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Deposited On:25 Oct 2007
Last Modified:08 Nov 2021 20:56

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