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Identification of Thermodynamically Inaccessible Target Sites for Fluorescence In Situ Hybridization (FISH)

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Understanding accessibility of the target site in fluorescence in situ hybridization (FISH) is critical for predicting the efficiency of hybridization. In this study, we investigated whether the free energy related to the unfolding of the target molecule (δG0 3) was a good predictor of target site accessibility. Using a theoretical analysis we identified potential problematic sites based on a generated δG0 3 map and experimentally studied one of those sites in detail. It was shown that although δG0 3 was a useful parameter for predicting accessibility, there was also a need for defining its limitations.

Document Type: Research Article


Publication date: January 1, 2007

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