Research

CLADE: Closed Loop Aptameric Directed Evolution

Closed loop aptameric directed evolution, (CLADE) is a technique enabling simultaneous discovery, evolution, and optimization of aptamers.
(Platt et al, 2009)

The technique was developed in the Kell group, and was an EPSRC-funded project.

Papers

• Rowe, W., Wedge, D., Platt, M., Kell, D.B., and Knowles, J. (2010) Convergent evolution to an aptamer observed in small populations on DNA microarrays, Physical Biology 7, 036007. Online edition.
• Rowe, W., Wedge, D., Platt, M., Kell, D.B., and Knowles, J. (2010) Predictive Models for Population Performance on Real Biological Fitness Landscapes, Bioinformatics, 26 (17): 2145-2152. doi: 10.1093/bioinformatics/btq353
• Platt, M., Rowe, W., Knowles, J., Day, P.J., Kell, D.B. (2009) Analysis of aptamer sequence-activity relationships. Integrative Biology, 1: 116-122. DOI:10.1039/b814892a. Online version
• Knight, C. G., Platt, M., Rowe, W., Wedge, D., Khan, F., McShea, A., Day, P.J., Knowles, J. and Kell, D.B. (2008) Array-based evolution of DNA aptamers allows modeling of an explicit sequence-fitness landscape. Nucleic Acids Research 37 (1): e6. doi: 10.1093/nar/gkn899. Nucleic Acids Advance Acess

Data

• Analysis of aptamer binding sequence-activity relationships using microarrays
• Analysis of the Complete Sequence-Fitness Landscape of a DNA Aptamer