Summary: Analysis of Selection Approaches for Aptamer Molecular Libraries
Analysis of Selection Approaches for Aptamer Molecular Libraries
Joe F. Rudzinski
Department of Mathematics and Chemistry, University of California at Santa Barbara.
Hyongsok T. Soh
Department of Mechanical Engineering and Materials Science, University of California at Santa Barbara.
Paul J. Atzberger
Department of Mathematics and Mechanical Engineering, University of California at Santa Barbara
(Dated: March 11, 2010)
Aptamers are short strands of nucleic acids which fold into three dimensional structures having the
ability to bind target molecules, such as proteins, small metabolites, or other nucleic acid structures.
Aptamers are an emerging class of molecules which are being utilized in place of antibodies in a
wide variety of applications, including protein purification, diagnostics, biosensor devices, and as
pharmaceutical drug candidates. Central to the development of aptamers is to determine nucleic
acid sequences which yield binding to desired target molecules with high affinity and specificity
or with particular kinetic characteristics. Obtaining such aptamers poses a significant challenge
in practice often requiring a lengthy and labor intensive refinement process in the laboratory. To
identify key mechanisms by which selection may be made more efficient, we present mathematical
analysis of several approaches which can be used for the refinement of aptamer libraries. We also
discuss approaches for selection of aptamers having specified kinetic characteristics.