Document Type

Article

Publication Date

11-1-2008

Department

Coastal Sciences, Gulf Coast Research Laboratory

Abstract

A central, unresolved problem of DNA microarray technology is the interpretation of different signal intensities from multiple probes targeting the same transcript. We propose a competitive hybridization model for DNA microarray hybridization. Our model uses a probe-specific dissociation constant that is computed with current nearest neighbor model and existing parameters, and only four global parameters that are fitted to Affymetrix Latin Square data. This model can successfully predict signal intensities of individual probes, therefore makes it possible to quantify the absolute concentration of targets. Our results offer critical insights into the design and data interpretation of DNA microarrays.

Publication Title

Nucleic Acids Research

Volume

36

Issue

20

First Page

6585

Last Page

6591

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