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. 2012 May 31;40(18):e138. doi: 10.1093/nar/gks475

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© The Author(s) 2012. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 3. — Schematic representation of hybridizing strands in the microarray experiment. From the appropriate ratios of intensities measured from these spots, the free energy parameters can be determined and the additivity principle can be tested. As in the rest of the article, the lower strand is the fixed target sequence. The upper strand is the probe sequence. The filled triangles denote mismatching nucleotides. In the four examples from the top we show: (a) hybridization with a PM probe, (b and c) hybridization with a single mismatch probe where the mismatching nucleotides are m and n at positions x and x + Δx, respectively, (d) hybridization with a probe carrying two mismatches. We use the notations , and to denote the corresponding intensities measured in the experiment.

Inline graphic — Schematic representation of hybridizing strands in the microarray experiment. From the appropriate ratios of intensities measured from these spots, the free energy parameters can be determined and the additivity principle can be tested. As in the rest of the article, the lower strand is the fixed target sequence. The upper strand is the probe sequence. The filled triangles denote mismatching nucleotides. In the four examples from the top we show: (a) hybridization with a PM probe, (b and c) hybridization with a single mismatch probe where the mismatching nucleotides are m and n at positions x and x + Δx, respectively, (d) hybridization with a probe carrying two mismatches. We use the notations , and to denote the corresponding intensities measured in the experiment.