Literature DB >> 18428900

In vitro selection using modified or unnatural nucleotides.

Scott M Knudsen1, Michael P Robertson, Andrew D Ellington.   

Abstract

The use of modified nucleotides in an RNA or DNA pool to be used for in vitro selection offers many potential advantages, such as the increased stability of the selected nucleic acid against nuclease degradation. This unit provides useful information and protocols for in vitro selection using modified nucleotides. It includes a discussion of when to use modified nucleotides; protocols for preparing a modified RNA pool and verifying its suitability for in vitro selection; and protocols for selecting and amplifying a functionally enriched pool.

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Year:  2002        PMID: 18428900     DOI: 10.1002/0471142700.nc0906s07

Source DB:  PubMed          Journal:  Curr Protoc Nucleic Acid Chem        ISSN: 1934-9270


  87 in total

1.  Selection of deoxyribozyme ligases that catalyze the formation of an unnatural internucleotide linkage.

Authors:  M Levy; A D Ellington
Journal:  Bioorg Med Chem       Date:  2001-10       Impact factor: 3.641

2.  Optimization and optimality of a short ribozyme ligase that joins non-Watson-Crick base pairings.

Authors:  M P Robertson; J R Hesselberth; A D Ellington
Journal:  RNA       Date:  2001-04       Impact factor: 4.942

3.  Sensitivity and specificity of photoaptamer probes.

Authors:  Drew Smith; Brian D Collins; James Heil; Tad H Koch
Journal:  Mol Cell Proteomics       Date:  2003-01       Impact factor: 5.911

4.  A Y639F/H784A T7 RNA polymerase double mutant displays superior properties for synthesizing RNAs with non-canonical NTPs.

Authors:  Robert Padilla; Rui Sousa
Journal:  Nucleic Acids Res       Date:  2002-12-15       Impact factor: 16.971

5.  Enhancing the catalytic repertoire of nucleic acids. II. Simultaneous incorporation of amino and imidazolyl functionalities by two modified triphosphates during PCR.

Authors:  T Gourlain; A Sidorov; N Mignet; S J Thorpe; S E Lee; J A Grasby; D M Williams
Journal:  Nucleic Acids Res       Date:  2001-05-01       Impact factor: 16.971

6.  In vitro selection of a deoxyribozyme that can utilize multiple substrates.

Authors:  Matthew Levy; Andrew D Ellington
Journal:  J Mol Evol       Date:  2002-02       Impact factor: 2.395

7.  Boron-containing aptamers to ATP.

Authors:  Susan M Lato; Nicole D S Ozerova; Kaizhang He; Zinaida Sergueeva; Barbara Ramsay Shaw; Donald H Burke
Journal:  Nucleic Acids Res       Date:  2002-03-15       Impact factor: 16.971

8.  Bridging the gap between proteins and nucleic acids: a metal-independent RNAseA mimic with two protein-like functionalities.

Authors:  D M Perrin; T Garestier; C Hélène
Journal:  J Am Chem Soc       Date:  2001-02-28       Impact factor: 15.419

9.  Combinatorial selection and binding of phosphorothioate aptamers targeting human NF-kappa B RelA(p65) and p50.

Authors:  David J King; Suzanne E Bassett; Xin Li; Susan A Fennewald; Norbert K Herzog; Bruce A Luxon; Robert Shope; David G Gorenstein
Journal:  Biochemistry       Date:  2002-07-30       Impact factor: 3.162

10.  In vivo properties of an anti-GnRH Spiegelmer: an example of an oligonucleotide-based therapeutic substance class.

Authors:  Britta Wlotzka; Susanne Leva; Bernd Eschgfäller; Jens Burmeister; Frank Kleinjung; Christine Kaduk; Peter Muhn; Holger Hess-Stumpp; Sven Klussmann
Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-17       Impact factor: 11.205

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  5 in total

Review 1.  Non-natural nucleic acids for synthetic biology.

Authors:  Daniel H Appella
Journal:  Curr Opin Chem Biol       Date:  2009-10-29       Impact factor: 8.822

2.  Comparing human pancreatic cell secretomes by in vitro aptamer selection identifies cyclophilin B as a candidate pancreatic cancer biomarker.

Authors:  Partha Ray; Kristy L Rialon-Guevara; Emanuela Veras; Bruce A Sullenger; Rebekah R White
Journal:  J Clin Invest       Date:  2012-04-09       Impact factor: 14.808

3.  Aptamer-mediated delivery of chemotherapy to pancreatic cancer cells.

Authors:  Partha Ray; Marcus A Cheek; Mariam L Sharaf; Na Li; Andrew D Ellington; Bruce A Sullenger; Barbara Ramsay Shaw; Rebekah R White
Journal:  Nucleic Acid Ther       Date:  2012-10       Impact factor: 5.486

4.  Inhibition of DNA replication by an anti-PCNA aptamer/PCNA complex.

Authors:  Ewa Kowalska; Filip Bartnicki; Ryo Fujisawa; Piotr Bonarek; Pawel Hermanowicz; Toshiki Tsurimoto; Klaudia Muszynska; Wojciech Strzalka
Journal:  Nucleic Acids Res       Date:  2018-01-09       Impact factor: 16.971

Review 5.  Aptamers for Targeted Drug Delivery.

Authors:  Partha Ray; Rebekah R White
Journal:  Pharmaceuticals (Basel)       Date:  2010-05-27
  5 in total

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