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PubMed · 10580474

Predicting oligonucleotide affinity to nucleic acid targets.

D H Mathews·M E Burkard·S M Freier·J R Wyatt·D H Turner
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Abstract

A computer program, OligoWalk, is reported that predicts the equilibrium affinity of complementary DNA or RNA oligonucleotides to an RNA target. This program considers the predicted stability of the oligonucleotide-target helix and the competition with predicted secondary structure of both the target and the oligonucleotide. Both unimolecular and bimolecular oligonucleotide self structure are considered with a user-defined concentration. The application of OligoWalk is illustrated with three comparisons to experimental results drawn from the literature.

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Base SequenceBinding SitesCalorimetryDNA, ComplementaryGlobinsKineticsModels, TheoreticalMolecular Sequence DataNucleic Acid ConformationOligodeoxyribonucleotidesOligoribonucleotidesRNARNA, ComplementaryRNA, MessengerRibonuclease HSoftwareThermodynamicsJournal ArticleResearch Support, Non-U.S. Gov'tResearch Support, U.S. Gov't, P.H.S.

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D H Mathews, M E Burkard, S M Freier, J R Wyatt, D H Turner. 1999. Predicting oligonucleotide affinity to nucleic acid targets.. https://doi.org/10.1017/s1355838299991148

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