Journal Article10.1021/JA051725B
A Versatile Toolbox for Variable DNA Functionalization at High Density
Stefan Jäger,Goran Rasched,Hagit Kornreich-Leshem,Marianne Engeser,Oliver Thum,Michael Famulok +5 more
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TL;DR: This study studies the sequence dependence of enzymatic amplification to yield high-density functionalized DNA (fDNA) from modified dNTPs, and of fDNA templates, and found that GC-rich sequences are amplified with decreased efficiency as compared to AT-rich ones.
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Abstract: To broaden the applicability of chemically modified DNAs in nano- and biotechnology, material science, sensor development, and molecular recognition, strategies are required for introducing a large variety of different modifications into the same nucleic acid sequence at once. Here, we investigate the scope and limits for obtaining functionalized dsDNA by primer extension and PCR, using a broad variety of chemically modified deoxynucleotide triphosphates (dNTPs), DNA polymerases, and templates. All natural nucleobases in each strand were substituted with up to four different base-modified analogues. We studied the sequence dependence of enzymatic amplification to yield high-density functionalized DNA (fDNA) from modified dNTPs, and of fDNA templates, and found that GC-rich sequences are amplified with decreased efficiency as compared to AT-rich ones. There is also a strong dependence on the polymerase used. While family A polymerases generally performed poorly on “demanding” templates containing consecuti...
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Citations
Aptamers as targeted therapeutics: current potential and challenges
Jiehua Zhou,John J. Rossi +1 more
TL;DR: This Review discusses challenges of clinical translation of therapeutic aptamers, highlighting recent clinical developments and technological advances that have revived the impetus for this promising class of therapeutics.
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Functional Aptamers and Aptazymes in Biotechnology, Diagnostics, and Therapy
TL;DR: Aptamers selected from chemically modified libraries can be completely resistant toward degradation by nucleases, and can lead to ligands with novel chemical functionalities normally not present in natural nucleic acids.
846
The chemical biology of aptamers.
TL;DR: This Review summarizes the most convenient approaches to their preparation and new developments in the field of aptamers.
567
Synthesis and Reactivity of Propargylamines in Organic Chemistry
TL;DR: The different synthetic approaches to synthesize propargylamines, such as A3 couplings and C-H functionalization of alkynes, have been described and organized on the basis of the catalysts employed in the syntheses.
Expanding the Chemistry of DNA for in Vitro Selection
Jonathan D. Vaught,Chris Bock,Jeffrey D. Carter,Tim Fitzwater,Matt Otis,Daniel J. Schneider,Justin C. Rolando,Sheela Waugh,Sheri K. Wilcox,Bruce E. Eaton +9 more
TL;DR: Six new 5-position modified dUTP derivatives connected by a unique amide linkage were synthesized and tested for compatibility with the enzymatic steps of in vitro selection, resulting in the first successful isolation of DNA aptamers able to bind TNFRSF9 with high affinity.
350
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TL;DR: Aptamers are different from antibodies, yet they mimic properties of antibodies in a variety of diagnostic formats, and may play a key role either in conjunction with, or in place of, antibodies in the form of aptamer-based diagnostic products in the market.
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A system for rapid DNA sequencing with fluorescent chain-terminating dideoxynucleotides
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TL;DR: A DNA sequencing system based on the use of a novel set of four chain-terminating dideoxynucleotides, each carrying a different chemically tuned succinylfluorescein dye distinguished by its fluorescent emission, and the sequence analysis of M13 phage DNA made with this system is described.
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TL;DR: The observations that facilitated the development of this emerging class of therapeutics, summarize progress to date, and speculate on the eventual utility of such agents in the clinic are reviewed.
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Enzymatic incorporation of a new base pair into DNA and RNA extends the genetic alphabet
TL;DR: A new Watson-Crick base pair, with a hydrogen bonding pattern different from that in the A·T and G·C base pairs, is incorporated into duplex DNA and RNA byDNA and RNA polymerases and expands the genetic alphabet from 4 to 6 letters.
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