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Characterization of Non-crosshybridizing DNA Oligonucleotides Manufactured in vitro

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Abstract

Libraries of DNA oligonucleotides manufactured by an in vitro selection protocol were characterized for their non-crosshybridizing properties. Cloning and sequencing after several iterations of the protocol showed that the sequences, in general, became more non-crosshybridizing. Gel electrophoresis of protocol product, also, indicated non-crosshybridization, and showed evolution in the population of molecules under the non-crosshybridization selection pressure. Melting curves of protocol product also indicated non-crosshybridization when compared to control samples. Thus, it appears that the protocol does select populations of non-crosshybridizing sequences.

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Authors and Affiliations

  1. Chemistry and Biochemistry, University of Delaware, Newark, DE, 19716, USA

    J. Chen, H. Bi & Y. -Z. Wang

  2. Computer Science and Engineering, University of Arkansas, Rm. 311 ENGR, Fayetteville, AR, 72701, USA

    R. Deaton

  3. Computer Science, University of Memphis, Memphis, TN, 38138, USA

    M. Garzon

  4. Biological Engineering, University of Arkansas, Fayetteville, AR, 72701, USA

    J. -W. Kim & D. Carpenter

  5. Computer and Information Sciences, University of Delaware, Newark, DE, 19716, USA

    D. H. Wood

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  1. J. Chen
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  2. R. Deaton
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  4. J. -W. Kim
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Correspondence to R. Deaton.

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Chen, J., Deaton, R., Garzon, M. et al. Characterization of Non-crosshybridizing DNA Oligonucleotides Manufactured in vitro. Nat Comput 5, 165–181 (2006). https://doi.org/10.1007/s11047-005-4460-2

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