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Exploring the sequence space of a DNA aptamer using microarrays


Abstract The relationship between sequence and binding properties of an aptamer for immunoglobulin E (IgE) was investigated using custom DNA microarrays. Single, double and some triple mutations of the aptamer sequence were created to evaluate the importance of specific base composition on aptamer binding. The majority of the positions in the aptamer sequence were found to be immutable, with changes at these positions resulting in more than a 100-fold decrease in binding affinity. Improvements in binding were observed by altering the stem region of the aptamer, suggesting that it plays a significant role in binding. Results obtained for the various mutations were used to estimate the information content and the probability of finding a functional ap... (more)
Created Date 2007-12-01
Contributor Katilius, Evaldas (ASU author) / Flores, Carole (ASU author) / Woodbury, Neal (ASU author) / Biodesign Institute / Swette Center for Environmental Biotechnology / Department of Chemistry and Biochemistry
Series NUCLEIC ACIDS RESEARCH
Type Text
Extent 10 pages
Language English
Identifier DOI: 10.1093/nar/gkm922 / ISSN: 1362-4962 / ISSN: 0305-1048
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Citation Katilius, E., Flores, C., & Woodbury, N. W. (2007). Exploring the sequence space of a DNA aptamer using microarrays. Nucleic Acids Research, 35(22), 7626-7635. doi:10.1093/nar/gkm922
Note The final version of this article, as published in Nucleic Acids Research, can be viewed online at: https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/gkm922
Collaborating Institutions ASU Library
Additional Formats MODS / OAI Dublin Core / RIS


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