Scott K Silverman

1991 …2017
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Research Output 1991 2017

2017

DNA-catalyzed DNA cleavage by a radical pathway with well-defined products

Lee, Y., Klauser, P. C., Brandsen, B. M., Zhou, C., Li, X. & Silverman, S. K., Jan 11 2017, In : Journal of the American Chemical Society. 139, 1, p. 255-261 7 p.

Research output: Contribution to journalArticle

Catalytic DNA
DNA Cleavage
cleavage
DNA
Catalysis
2016

Assessing histidine tags for recruiting deoxyribozymes to catalyze peptide and protein modification reactions

Chu, C. C. & Silverman, S. K., Jan 1 2016, In : Organic and Biomolecular Chemistry. 14, 20, p. 4697-4703 7 p.

Research output: Contribution to journalArticle

His-His-His-His-His-His
Catalytic DNA
histidine
Histidine
peptides

Catalytic DNA: Scope, Applications, and Biochemistry of Deoxyribozymes

Silverman, S. K., Jul 1 2016, In : Trends in Biochemical Sciences. 41, 7, p. 595-609 15 p.

Research output: Contribution to journalReview article

Catalytic DNA
Biochemistry
RNA
DNA
Enzymes

DNA-Catalyzed Amide Hydrolysis

Zhou, C., Avins, J. L., Klauser, P. C., Brandsen, B. M., Lee, Y. & Silverman, S. K., Mar 2 2016, In : Journal of the American Chemical Society. 138, 7, p. 2106-2109 4 p.

Research output: Contribution to journalArticle

Catalytic DNA
Amides
hydrolysis
Hydrolysis
DNA

DNA-catalyzed glycosylation using aryl glycoside donors

Hesser, A. R., Brandsen, B. M., Walsh, S. M., Wang, P. & Silverman, S. K., Jan 1 2016, In : Chemical Communications. 52, 59, p. 9259-9262 4 p.

Research output: Contribution to journalArticle

Catalytic DNA
Glycosylation
Glycosides
DNA
Oligonucleotides

DNA-Catalyzed Introduction of Azide at Tyrosine for Peptide Modification

Wang, P. & Silverman, S. K., Jan 1 2016, In : Angewandte Chemie - International Edition. 55, 34, p. 10052-10056 5 p.

Research output: Contribution to journalArticle

Catalytic DNA
Azides
Peptides
Tyrosine
DNA

DNA Oligonucleotide 3′-Phosphorylation by a DNA Enzyme

Camden, A. J., Walsh, S. M., Suk, S. H. & Silverman, S. K., May 10 2016, In : Biochemistry. 55, 18, p. 2671-2676 6 p.

Research output: Contribution to journalArticle

Phosphorylation
Oligonucleotides
DNA
Enzymes
Catalytic DNA
2015

Identification of Sequence-Selective Tyrosine Kinase Deoxyribozymes

Walsh, S. M., Konecki, S. N. & Silverman, S. K., Dec 1 2015, In : Journal of Molecular Evolution. 81, 5-6, p. 218-224 7 p.

Research output: Contribution to journalArticle

Catalytic DNA
peptide
Protein-Tyrosine Kinases
tyrosine
phosphotransferases (kinases)

Phosphoserine lyase deoxyribozymes: DNA-catalyzed formation of dehydroalanine residues in peptides

Chandrasekar, J., Wylder, A. C. & Silverman, S. K., Aug 5 2015, In : Journal of the American Chemical Society. 137, 30, p. 9575-9578 4 p.

Research output: Contribution to journalArticle

Catalytic DNA
Phosphoserine
Lyases
peptide
Peptides

Pursuing DNA catalysts for protein modification

Silverman, S. K., May 19 2015, In : Accounts of chemical research. 48, 5, p. 1369-1379 11 p.

Research output: Contribution to journalArticle

Catalytic DNA
Catalysts
DNA
Amides
Proteins

Selective Aptamers for Detection of Estradiol and Ethynylestradiol in Natural Waters

Akki, S. U., Werth, C. J. & Silverman, S. K., Jul 16 2015, In : Environmental Science and Technology. 49, 16, p. 9905-9913 9 p.

Research output: Contribution to journalArticle

Nucleotide Aptamers
Estradiol
DNA
Water
fold
2014

A generalizable DNA-catalyzed approach to peptide-nucleic acid conjugation

Chu, C. C., Wong, O. Y. I. & Silverman, S. K., Sep 5 2014, In : Chembiochem : a European journal of chemical biology. 15, 13, p. 1905-1910 6 p.

Research output: Contribution to journalArticle

Peptide Nucleic Acids
Peptides
Catalytic DNA
DNA
Nucleic Acids

A modular tyrosine kinase deoxyribozyme with discrete aptamer and catalyst domains

Dokukin, V. & Silverman, S. K., Aug 25 2014, In : Chemical Communications. 50, 66, p. 9317-9320 4 p.

Research output: Contribution to journalArticle

Catalytic DNA
Protein-Tyrosine Kinases
Catalysts
DNA
Nucleotide Aptamers

DNA-catalyzed lysine side chain modification

Brandsen, B. M., Velez, T. E., Sachdeva, A., Ibrahim, N. A. & Silverman, S. K., Aug 18 2014, In : Angewandte Chemie - International Edition. 53, 34, p. 9045-9050 6 p.

Research output: Contribution to journalArticle

Lysine
DNA
Catalysis
Substrates
Proteins
2013

Catalytic DNA with phosphatase activity

Chandrasekar, J. & Silverman, S. K., Apr 2 2013, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 14, p. 5315-5320 6 p.

Research output: Contribution to journalArticle

Catalytic DNA
Phosphoric Monoester Hydrolases
DNA
Hydrolysis
Phosphoserine

DNA catalysis of a normally disfavored RNA hydrolysis reaction

Parker, D. J., Xiao, Y., Aguilar, J. M. & Silverman, S. K., Jun 12 2013, In : Journal of the American Chemical Society. 135, 23, p. 8472-8475 4 p.

Research output: Contribution to journalArticle

catalysis
RNA
Catalysis
hydrolysis
Hydrolysis

DNA catalysts with tyrosine kinase activity

Walsh, S. M., Sachdeva, A. & Silverman, S. K., Oct 21 2013, In : Journal of the American Chemical Society. 135, 40, p. 14928-14931 4 p.

Research output: Contribution to journalArticle

Catalytic DNA
Protein-Tyrosine Kinases
Tyrosine
Catalyst activity
DNA

DNA-catalyzed hydrolysis of esters and aromatic amides

Brandsen, B. M., Hesser, A. R., Castner, M. A., Chandra, M. & Silverman, S. K., Oct 30 2013, In : Journal of the American Chemical Society. 135, 43, p. 16014-16017 4 p.

Research output: Contribution to journalArticle

Amides
ester
hydrolysis
Hydrolysis
Esters
2012

Covalent Tagging of Phosphorylated Peptides by Phosphate-Specific Deoxyribozymes

Sachdeva, A., Chandra, M., Chandrasekar, J. & Silverman, S. K., Mar 1 2012, In : ChemBioChem. 13, 5, p. 654-657 4 p.

Research output: Contribution to journalArticle

Catalytic DNA
Phosphopeptides
Phosphorylation
Phosphates
Peptides
Catalytic DNA
lysine
nucleic acids
linkages
Nucleic Acids

Establishing broad generality of DNA catalysts for site-specific hydrolysis of single-stranded DNA

Xiao, Y., Wehrmann, R. J., Ibrahim, N. A. & Silverman, S. K., Feb 1 2012, In : Nucleic acids research. 40, 4, p. 1778-1786 9 p.

Research output: Contribution to journalArticle

Single-Stranded DNA
Hydrolysis
Catalytic DNA
DNA
Nucleotides

Lanthanide ions as required cofactors for DNA catalysts

Dokukin, V. & Silverman, S. K., May 1 2012, In : Chemical Science. 3, 5, p. 1707-1714 8 p.

Research output: Contribution to journalArticle

Lanthanoid Series Elements
Catalytic DNA
Ions
Catalysts
DNA

Selective functionalization: Shields for small molecules

Silverman, S. K., Oct 1 2012, In : Nature Chemistry. 4, 10, p. 774-775 2 p.

Research output: Contribution to journalShort survey

Nucleotide Aptamers
Molecules

Systematic evaluation of the dependence of deoxyribozyme catalysis on random region length

Velez, T. E., Singh, J., Xiao, Y., Allen, E. C., Wong, O. Y., Chandra, M., Kwon, S. C. & Silverman, S. K., Dec 10 2012, In : ACS Combinatorial Science. 14, 12, p. 680-687 8 p.

Research output: Contribution to journalArticle

Catalytic DNA
Catalysis
DNA
Nucleotide Aptamers
RNA
2011

DNA-catalyzed covalent modification of amino acid side chains in tethered and free peptide substrates

Wong, O. Y., Pradeepkumar, P. I. & Silverman, S. K., May 31 2011, In : Biochemistry. 50, 21, p. 4741-4749 9 p.

Research output: Contribution to journalArticle

Catalytic DNA
Amino Acids
Peptides
Tyrosine
DNA

DNA-catalyzed reductive amination

Wong, O. Y., Mulcrone, A. E. & Silverman, S. K., Dec 2 2011, In : Angewandte Chemie - International Edition. 50, 49, p. 11679-11684 6 p.

Research output: Contribution to journalArticle

Amination
DNA
Guanosine
Nucleic acids
Nucleic Acids

Improved deoxyribozymes for synthesis of covalently branched DNA and RNA

Lee, C. S., Mui, T. P. & Silverman, S. K., Jan 17 2011, In : Nucleic acids research. 39, 1, p. 269-279 11 p.

Research output: Contribution to journalArticle

Catalytic DNA
RNA
DNA
Nucleic Acids
Ribonucleotides

Merely two mutations switch a DNA-hydrolyzing deoxyribozyme from heterobimetallic (Zn2+/Mn2+) to monometallic (Zn 2+-only) behavior

Xiao, Y., Allen, E. C. & Silverman, S. K., Feb 14 2011, In : Chemical Communications. 47, 6, p. 1749-1751 3 p.

Research output: Contribution to journalArticle

Catalytic DNA
DNA
Switches
Nucleotides
Metal ions
2010

DNA as a versatile chemical component for catalysis, encoding, and stereocontrol

Silverman, S. K., Sep 24 2010, In : Angewandte Chemie - International Edition. 49, 40, p. 7180-7201 22 p.

Research output: Contribution to journalReview article

Catalysis
DNA
Chemical elements
Catalysts

DNA-catalyzed serine side chain reactivity and selectivity

Sachdeva, A. & Silverman, S. K., Mar 25 2010, In : Chemical Communications. 46, 13, p. 2215-2217 3 p.

Research output: Contribution to journalArticle

Serine
DNA
Catalytic DNA
Tyrosine

Erratum: Multivector fluorescence analysis of the xpt guanine riboswitch aptamer domain and the conformational role of guanine (Biochemistry (2010) 49 (1596) DOI: 10.1021/bi9019912))

Brenner, M. D., Scanlan, M. S., Nanas, M. K., Ha, T. & Silverman, S. K., Mar 16 2010, In : Biochemistry. 49, 10, 1 p.

Research output: Contribution to journalComment/debate

Riboswitch
Guanine
Biochemistry
Fluorescence

Functional compromises among pH tolerance, site specificity, and sequence tolerance for a DNA-hydrolyzing deoxyribozyme

Xiao, Y., Chandra, M. & Silverman, S. K., Nov 9 2010, In : Biochemistry. 49, 44, p. 9630-9637 8 p.

Research output: Contribution to journalArticle

Catalytic DNA
DNA Cleavage
DNA
Substrates
Hydrolysis

Multivector fluorescence analysis of the xpt guanine riboswitch aptamer domain and the conformational role of guanine

Brenner, M. D., Scanlan, M. S., Nahas, M. K., Ha, T. & Silverman, S. K., Mar 2 2010, In : Biochemistry. 49, 8, p. 1596-1605 10 p.

Research output: Contribution to journalArticle

Riboswitch
Guanine
Fluorescence
Fluorescence Resonance Energy Transfer
Conformations
2009

Deoxyribozymes: selection design and serendipity in the development of DNA catalysts.

Silverman, S. K., Oct 20 2009, In : Accounts of chemical research. 42, 10, p. 1521-1531 11 p.

Research output: Contribution to journalReview article

Catalytic DNA
Catalysts
RNA
DNA
DNA sequences

DNA-catalyzed sequence-specific hydrolysis of DNA

Chandra, M., Sachdeva, A. & Silverman, S. K., Oct 2009, In : Nature chemical biology. 5, 10, p. 718-720 3 p.

Research output: Contribution to journalArticle

Hydrolysis
Catalytic DNA
DNA
RNA Cleavage
Deoxyribonucleases

Efficient control of group I intron ribozyme catalysis by DNA constraints

Zelin, E. & Silverman, S. K., Mar 30 2009, In : Chemical Communications. 7, p. 767-769 3 p.

Research output: Contribution to journalArticle

Catalytic RNA
Introns
Catalysis
DNA

Multimodal optical sensing and analyte specificity using single-walled carbon nanotubes

Heller, D. A., Jin, H., Martinez, B. M., Patel, D., Miller, B. M., Yeung, T. K., Jena, P. V., Höbartner, C., Ha, T., Silverman, S. K. & Strano, M. S., Feb 2009, In : Nature Nanotechnology. 4, 2, p. 114-120 7 p.

Research output: Contribution to journalArticle

Single-walled carbon nanotubes (SWCN)
carbon nanotubes
Nanotubes
Molecules
Optical sensors

Use of deoxyribozymes in RNA research.

Silverman, S. K. & Baum, D. A., 2009, In : Methods in enzymology. 469, p. 95-117 23 p.

Research output: Contribution to journalArticle

Catalytic DNA
RNA
Research
Ligation
RNA Cleavage
2008

A Forced March across an RNA Folding Landscape

Silverman, S. K., Mar 21 2008, In : Chemistry and Biology. 15, 3, p. 211-213 3 p.

Research output: Contribution to journalShort survey

Riboswitch
RNA Folding
Adenine
RNA
Molecules

Catalytic DNA (deoxyribozymes) for synthetic applications-current abilities and future prospects

Silverman, S. K., Jul 30 2008, In : Chemical Communications. 30, p. 3467-3485 19 p.

Research output: Contribution to journalReview article

Catalytic DNA
DNA
Catalytic RNA
Enzymes
RNA
Catalytic DNA
Regioselectivity
linkages
Ligation
phosphates

Convergent and general one-step DNA-catalyzed synthesis of multiply branched DNA

Mui, T. P. & Silverman, S. K., Dec 1 2008, In : Organic Letters. 10, 20, p. 4417-4420 4 p.

Research output: Contribution to journalArticle

deoxyribonucleic acid
Catalytic DNA
DNA
synthesis
Ribonucleotides

Deoxyribozymes: Useful DNA catalysts in vitro and in vivo

Baum, D. A. & Silverman, S. K., Jul 1 2008, In : Cellular and Molecular Life Sciences. 65, 14, p. 2156-2174 19 p.

Research output: Contribution to journalReview article

Catalytic DNA
Catalysts
DNA
RNA
RNA Cleavage

DNA and RNA can be equally efficient catalysts for carbon-carbon bond formation

Chandra, M. & Silverman, S. K., Mar 12 2008, In : Journal of the American Chemical Society. 130, 10, p. 2936-2937 2 p.

Research output: Contribution to journalArticle

Catalytic DNA
RNA
Catalytic RNA
DNA
Carbon

DNA-catalyzed formation of nucleopeptide linkages

Pradeepkumar, P. I., Höbartner, C., Baum, D. A. & Silverman, S. K., Feb 15 2008, In : Angewandte Chemie - International Edition. 47, 9, p. 1753-1757 5 p.

Research output: Contribution to journalArticle

RNA
Tyrosine
DNA
Catalytic DNA
Oligonucleotides

Improvement of DNA adenylation using T4 DNA ligase with a template strand and a strategically mismatched acceptor strand

Patel, M. P., Baum, D. A. & Silverman, S. K., Apr 1 2008, In : Bioorganic Chemistry. 36, 2, p. 46-56 11 p.

Research output: Contribution to journalArticle

DNA Ligases
DNA
Substrates
Polynucleotide 5'-Hydroxyl-Kinase
Ligases

Selective stabilization of natively folded RNA structure by DNA constraints

Gerdt, J. P., Miduturu, C. V. & Silverman, S. K., Nov 12 2008, In : Journal of the American Chemical Society. 130, 45, p. 14920-14921 2 p.

Research output: Contribution to journalArticle

RNA
stabilization
DNA
Stabilization
Nucleic Acid Conformation
2007

Allosteric control of ribozyme catalysis by using DNA constraints

Zelin, E. & Silverman, S. K., Nov 5 2007, In : ChemBioChem. 8, 16, p. 1907-1911 5 p.

Research output: Contribution to journalArticle

Catalytic RNA
Catalysis
RNA
DNA
hammerhead ribozyme

A simple molecular model for thermophilic adaptation of functional nucleic acids

Blose, J. M., Silverman, S. K. & Bevilacqua, P. C., Apr 10 2007, In : Biochemistry. 46, 14, p. 4232-4240 9 p.

Research output: Contribution to journalArticle

Molecular Models
Nucleic Acids
RNA
Free energy
Base Pairing