DNAzymeBuilder

Publications


Year First_Author Laboratory Title PubMed_id DOI
2014 Wang, M. Tang, Z In vitro selection of DNA-cleaving deoxyribozyme with site-specific thymidine excision activity. 25030901 10.1093/nar/gku592
2019 Dastjerdi-Khorzoghi, P. Javadi-Zarnaghi, F Targeting a viral DNA sequence with a deoxyribozyme in a preparative scale 31377192 10.1016/j.biochi.2019.07.022
2012 Xiao, Y. Silverman, S. K Establishing broad generality of DNA catalysts for site-specific hydrolysis of single-stranded DNA 22021383 10.1093/nar/gkr860
2010 Xiao, Y. Silverman, S. K Functional Compromises among pH Tolerance, Site Specificity, and Sequence Tolerance for a DNA-Hydrolyzing Deoxyribozyme 20923239 10.1021/bi1013672
2011 Xiao, Y. Silverman, S. K Merely two mutations switch a DNA-hydrolyzing deoxyribozyme from heterobimetallic (Zn 2+ /Mn 2+ ) to monometallic (Zn 2+ -only) behavior 21125108 10.1039/c0cc04575f
2009 Chandra, M. Silverman, S. K DNA-catalyzed sequence-specific hydrolysis of DNA 19684594 10.1038/nchembio.201
2007 Kim, H. K. Lu, Y. Dissecting metal ion–dependent folding and catalysis of a single DNAzyme 17965708 10.1038/nchembio.2007.45
2016 Wang, M. Q. Wang, M. Q. Characterization of deoxyribozymes with site-specific oxidative cleavage activity against DNA obtained by in vitro selection 26809730 10.1039/c6ob00148c
2013 Gu, H. Breaker, R. R Small, Highly Active DNAs That Hydrolyze DNA 23679108 10.1021/ja403585e
2013 Liu, Y. He, J. Breaking the conservation of guanine residues in the catalytic loop of 10–23 DNAzyme by position-specific nucleobase modifications for rate enhancement 23615852 10.1039/c3cc42067a
2017 Lee, Y. Silverman, S. K DNA-Catalyzed DNA Cleavage by a Radical Pathway with Well-Defined Products 27935689 10.1021/jacs.6b10274
2012 Dokukin, V. Silverman, S. K Lanthanide ions as required cofactors for DNA catalysts 23243490 10.1039/C2SC01067D.
1998 Carmi, N. Breaker, R. R Cleaving DNA with DNA 9482868 10.1073/pnas.95.5.2233
2001 Carmi, N. Breaker, R. R Characterization of a DNA-Cleaving deoxyribozyme 11557347 10.1016/s0968-0896(01)00035-9
2015 Zhu, J. He, J. Studies on the preferred uracil-adenine base pair at the cleavage site of 10-23 DNAzyme by functional group modifications on adenine 26145822 10.1016/j.bmc.2015.06.041
2000 CAIRNS, M. J. CAIRNS, M. J. The influence of arm length asymmetry and base substitution on the activity of the 10-23 DNA enzyme 11079572 10.1089/oli.1.2000.10.323
2003 CAIRNS, M. J. CAIRNS, M. J. Optimisation of the 10-23 DNAzyme-substrate pairing interactions enhanced RNA cleavage activity at purine-cytosine target sites. 12771215 10.1093/nar/gkg378
1997 Santoro, S. W. Joyce, G.F A general purpose RNA-cleaving DNA enzyme 9113977 10.1073/pnas.94.9.4262
2010 Gerasimova, Y. V. Kolpashchikov, D. M. Nucleic acid detection using MNAzymes 20189100 10.1016/j.chembiol.2010.02.003
2008 Schlosser, K. Li, Y. Sequence-function relationships provide new insight into the cleavage site selectivity of the 8–17 RNA-cleaving deoxyribozyme 18203744 10.1093/nar/gkm1175
2014 Huang, P. J. J. Liu, J. Ultrasensitive DNAzyme Beacon for Lanthanides and Metal Speciation 24383540 10.1021/ac403762s
2014 Li, Z. He, J. Position-specific modification with imidazolyl group on10–23 DNAzyme realized catalytic activity enhancement 24961875 10.1016/j.bmc.2014.05.070
2000 Li, J Lu, Y. In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme 10606646 10.1093/nar/28.2.481
2013 Parker, D. J. Silverman, S. K. DNA Catalysis of a Normally Disfavored RNA Hydrolysis Reaction 23697866 10.1021/ja4032488
2017 Kasprowicz, A. Ciesiołka, J. Characterization of Highly Efficient RNA-Cleaving DNAzymes that Function at Acidic pH with No Divalent Metal-Ion Cofactors 28168150 10.1002/open.201600141
1998 Roth, A. Breaker, R. R. An amino acid as a cofactor for a catalytic polynucleotide 9600911 10.1073/pnas.95.11.6027
2016 Saran, R. Liu, J. A Silver DNAzyme 26977895 10.1021/acs.analchem.6b00327
1994 Breaker, R. R. Joyce, G. F. A DNA enzyme that cleaves RNA 9383394 10.1016/1074-5521(94)90014-0
2018 Sednev, M. V. Höbartner, C. N6-Methyladenosine-Sensitive RNA-Cleaving Deoxyribozymes 30276938 10.1002/anie.201808745
2020 Liaqat, A. Höbartner, C. N6-isopentenyladenosine in RNA determines the cleavage site of endonuclease deoxyribozymes 32681686 10.1002/anie.202006218
2019 Ma, L. Liu, J. An in Vitro-Selected DNAzyme Mutant Highly Specific for Na under Slightly Acidic Conditions. 29989277 10.1002/cbic.201800322
2015 Huang, P. J. J. Liu, J. A new heavy lanthanide-dependent DNAzyme displaying strong metal cooperativity and unrescuable phosphorothioate effect 25488814 10.1093/nar/gku1296
2014 Huang, P. J. J. Liu, J. In Vitro Selection of a New Lanthanide-Dependent DNAzyme for Ratiometric Sensing Lanthanides 25199650 10.1021/ac5029962
2019 Wang, Y. Yu, H. A Novel small RNA-Cleaving Deoxyribozyme with a short Binding Arm 31160698 10.1038/s41598-019-44750-x
2014 Xu, J. Jiang, D. Engineering a DNA-cleaving DNAzyme and PCR into a simple sensor for zinc ion detection 24677031 10.1007/s00216-014-7732-9
2006 Hou, W. Wo, J. Inhibition of hepatitis B virus X gene expression by 10-23 DNAzymes 16930733 10.1016/j.antiviral.2006.07.001
2020 Alon, D. Elbaz, J. Engineering a DNAzyme-Based Operon System for the Production of DNA Nanoscaffolds in Living Bacteria 31992039 10.1021/acssynbio.9b00415
2020 Guillen, D. Ouellet, J. A simple and affordable kinetic assay of nucleic acids with SYBR Gold gel staining 32126098 10.1371/journal.pone.0229527
2018 Du, X. Gu, H. Retraining and Optimizing DNA-hydrolyzing Deoxyribozymes for Robust Single- and Multiple-turnover Activities 10.1021/acscatal.8b01466
2014 Furukawa, K. Minakawa, N. Allosteric control of a DNA-hydrolyzing deoxyribozyme with short oligonucleotides and its application in DNA logic gates 24740418 10.1039/c4ob00451e
2020 Cao, D. Jiang, D. Characterization of a DNA-hydrolyzing DNAzyme for generation of PCR strands of unequal length 33022314 10.1016/j.biochi.2020.10.001
2016 Ma, L. Liu, J. DNA Adsorption by ZnO Nanoparticles near Its Solubility Limit: Implications for DNA Fluorescence Quenching and DNAzyme Activity Assays 27166701 10.1021/acs.langmuir.6b00906
2017 Dhamodharan, V. Yokobayashi, Y. Large Scale Mutational and Kinetic Analysis of a Self-Hydrolyzing Deoxyribozyme 29058875 10.1021/acschembio.7b00621
2013 Gu, H. Breaker, R. R. Production of single-stranded DNAs by self-cleavage of rolling-circle amplifcation products 23750543 10.2144/000114009
2015 Liu, C. Jiang, D. A glucose oxidase-coupled DNAzyme sensor for glucose detection in tears and saliva 25863343 10.1016/j.bios.2015.03.070
2010 Jiang, D. Zhang, J. An allosteric DNAzyme with dual RNA-cleaving and DNA-cleaving activities 20553490 10.1111/j.1742-4658.2010.07669.x
2006 Chen, X. He, L. Construction of Molecular Logic Gates with a DNA-Cleaving Deoxyribozyme 16470893 10.1002/anie.200502511
2020 Yu, W. Jiang, D. Insight into an Oxidative DNA-Cleaving DNAzyme: Multiple Cofactors, the Catalytic Core Map and a Highly Efficient Variant 33083724 10.1016/j.isci.2020.101555
2017 Sun, Y. Jiang, D. New cofactors and inhibitors for a DNA-cleaving DNAzyme: superoxide anion and hydrogen peroxide mediated an oxidative cleavage process 28336968 10.1038/s41598-017-00329-y
2017 Wang, S. Jiang, D. The Triple Roles of Glutathione for a DNA-Cleaving DNAzyme and Development of a Fluorescent Glutathione/Cu2+-Dependent DNAzyme Sensor for Detection of Cu2+ in Drinking Water 28723208 10.1021/acssensors.6b00667
2021 Pan, J. Chen, J. Dual recognition element-controlled logic DNA circuit for COVID-19 detection based on exonuclease III and DNAzyme 33410447 10.1039/d0cc06799g
2002 Ferrari, D. Peracchi, A. A continuous kinetic assay for RNA-cleaving deoxyribozymes, exploiting ethidium bromide as an extrinsic fluorescent probe 12384614 10.1093/nar/gnf111
2002 Wang, D. Sen, D. A General Strategy for Effector-mediated Control of RNA-cleaving Ribozymes and DNA Enzymes 12054766 10.1016/S0022-2836(02)00046-3
2010 Lan, T. Lu, Y. A highly selective lead sensor based on a classic lead DNAzyme 20407665 10.1039/b926910j
2003 Brown, A. Lu, Y. A Lead-Dependent DNAzyme with a Two-Step Mechanism 12795611 10.1021/bi027332w
2005 Peracchi, A. Peracchi, A. A Mutational Analysis of the 8–17 Deoxyribozyme Core 16125199 10.1016/j.jmb.2005.07.059
2011 He, J. Liu, K. A novel strategy of chemical modification for rate enhancement of 10–23 DNAzyme: a combination of A9 position and 8-aza-7-deaza-2¢-deoxyadenosine analogs 21717014 10.1039/c1ob05065f
2009 Mazumdar, D. Lu, Y. Activity, Folding and Z-DNA Formation of the 8-17 DNAzyme in the Presence of Monovalent Ions 19326878 10.1021/ja8082939
2020 Rudeejaroonrung, K. Maruyama, A. Cationic copolymer enhances 8–17 DNAzyme and MNAzyme activities 32458899 10.1039/d0bm00428f
2004 Cruz, R. P. Li, Y. Dinucleotide Junction Cleavage Versatility of 8-17 Deoxyribozyme 15112995 10.1016/j.chembiol.2003.12.012
2017 Liu, M. Li, Y. Discovery and Biosensing Applications of Diverse RNA-Cleaving DNAzymes 28805376 10.1021/acs.accounts.7b00262
2009 Schlosser, K. Li, Y. DNAzyme-mediated catalysis with only guanosine and cytidine nucleotides 19050014 10.1093/nar/gkn930
2007 Chiuman, W. Li, Y. Efficient signaling platforms built from a small catalytic DNA and doubly labeled fluorogenic substrates 17169997 10.1093/nar/gkl1056
2007 Leung, E. Sen, D. Electron Hole Flow Patterns through the RNA-Cleaving 8-17 Deoxyribozyme Yield Unusual Information about Its Structure and Folding 17254951 10.1016/j.chembiol.2006.11.006
2018 Cepeda-Plaza, M. Lu, Y. Evidence of a General Acid−Base Catalysis Mechanism in the 8−17 DNAzyme 29389111 10.1021/acs.biochem.7b01096
2003 Chakraborti, S. Banerjea, A. C. Identification of Cleavage Sites in the HIV-1 TAR RNA by 10-23 and 8-17 Catalytic Motif Containing DNA Enzymes 12741771 10.1021/bm025698i
2003 Flynn-Charlebois, A. Silverman, S. K. In Vitro Evolution of an RNA-Cleaving DNA Enzyme into an RNA Ligase Switches the Selectivity from 3′-5′ to 2′-5′ 12720447 10.1021/ja0340331
2010 Lam, J. C. Li, Y. Influence of Cleavage Site on Global Folding of an RNACleaving DNAzyme 20665772 10.1002/cbic.201000144
2004 Bonaccio, M. Peracchi, A. Kinetic and thermodynamic characterization of the RNA-cleaving 8-17 deoxyribozyme 14963261 10.1093/nar/gkh250
2017 Peracchi, A. Peracchi, A. Local conformational changes in the 8–17 deoxyribozyme core induced by activating and inactivating divalent metal ions 29022640 10.1039/c7ob02001e
2019 Xiao, L. Xiang, Y. Orthogonal Activation of RNA-Cleaving DNAzymes in Live Cells by Reactive Oxygen Species 31314942 10.1002/anie.201908105
2020 Du, S. He, J. Functionalization of 8-17 DNAzymes modulates catalytic efficiency and divalent metal ion preference 31711763 10.1016/j.bioorg.2019.103401
2020 Dellafiore, M. Iribarren, A. M. Core modified 8–17 DNAzymes with 2′-deoxy-2′-C-methylpyrimidine nucleosides 33142406 10.1016/j.bioorg.2020.104328
2020 Dai, S. Cheng, G. The Split Primer Ligation-triggered 8-17 DNAzyme Assisted Cascade Rolling Circle Amplification for High Specific Detection of Liver Cancer-involved mRNAs: TK1 and c-myc 10.1002/elan.201900539
2019 Memon, A. G. He, M. Label-free colorimetric nanosensor with improved sensitivity for Pb2 + in water by using a truncated 8–17 DNAzyme 10.1007/s11783-019-1094-7
2010 Wang, B. Xi, Z. Probing the Function of Nucleotides in the Catalytic Cores of the 8-17 and 10-23 DNAzymes by Abasic Nucleotide and C3 Spacer Substitutions 20698496 10.1021/bi100304b
2010 Wang, B. Xi, Z. Replacing Mg2+ by Fe2+ for RNA-cleaving DNAzymes 31322805 10.1002/cbic.201900344
2003 Breaker, R. R. Lazarev, D. A common speed limit for RNA-cleaving ribozymes and deoxyribozymes 12869706 10.1261/rna.5670703
1998 Santoro, S. W. Joyce, G. F. Mechanism and Utility of an RNA-Cleaving DNA Enzyme 9748341 10.1021/bi9812221
2006 Asanuma, H. Asanuma, H. Enhancement of RNA cleavage activity of 10–23 DNAzyme by covalently introduced intercalator 17146528 10.1039/b611078a
2012 Jung, J. Kim, S. K. Effect of Single-Base Mutation on Activity and Folding of 10-23 Deoxyribozyme Studied by Three-Color Single-Molecule ALEX FRET 22329599 10.1021/jp2117196
2020 Li, Y. He, J. A new Pb2+-specifc DNAzyme by revisiting the catalytic core of 10–23 DNAzyme 33038786 10.1016/j.bmc.2020.115796
2000 Cairns, M. J. Sun, L. Q. Nucleic acid mutation analysis using catalytic DNA 637339 10.1093/nar/28.3.e9
2001 Joyce, G. F. Joyce, G. F. RNA Cleavage by the 10-23 DNA Enzyme 11582801 10.1016/s0076-6879(01)41173-6
2006 Hayashi, H. Asanuma, H. Activation of DNA enzyme 10–23 by tethering an intercalator to its backbone 17150870 10.1093/nass/nrl083
2012 Wang, Q. Liu, K. Catalytic cleavage activities of 10–23 DNAzyme analogs functionalized with an amino group in its catalytic core 10.1016/j.apsb.2011.11.002
2020 Hanpanich, O. Maruyama, A. Cationic copolymer-chaperoned short-armed 10–23 DNAzymes 31608816 10.1080/15257770.2019.1675168
2002 Dass, C. R. Sun, L. Q. Cellular Uptake, Distribution, and Stability of 10-23 Deoxyribozymes 12477279 10.1089/108729002761381276
2017 Fokina, A. A. Fokina, A. A. Delivery of therapeutic RNA-cleaving oligodeoxyribonucleotides (deoxyribozymes): from cell culture studies to clinical trials 27892730 10.1080/17425247.2017.1266326
2007 Sheng, Y. Zhang, J. Design and switch of catalytic activity with the DNAzyme–RNAzyme combination 17434496 10.1016/j.febslet.2007.03.062
2019 Winczura, K. Grzechnik, P. DNAzyme-dependent Analysis of rRNA 2’-O-Methylation 31566620 10.3791/59700
2000 Todd, A. V. Todd, A. V. DzyNA-PCR: Use of DNAzymes to Detect and Quantify Nucleic Acid Sequences in a Real-Time Fluorescent Format 10794743 10.1093/clinchem/46.5.625
2008 Nawrot, B. Nawrot, B. Effect of RP and SPPhosphorothioate Substitution at the Scissile Site on the Cleavage Activity of Deoxyribozyme 10-23 10.2174/138527208785161204
2011 Yi, J. Yi, J. Efficient Silencing of Gene Expression by an ASON– Bulge–DNAzyme Complex 21490924 10.1371/journal.pone.0018629
2012 Robaldo, L. Iribarren, A. M. Influence of conformationally restricted pyrimidines on the activity of 10–23 DNAzymes 22429508 10.1016/j.bmc.2012.02.047
2019 Ven, K. Lammertyn, J. Re-engineering 10-23 core DNA- and MNAzymes for applications at standard room temperature 30341659 10.1007/s00216-018-1429-4
2003 Schubert, S. Schubert, S. RNA cleaving ‘10-23’ DNAzymes with enhanced stability and activity 14530446 10.1093/nar/gkg791
2002 Fürste, J. P. Kurreck, J. Sequence Requirements in the Catalytic Core of the “10-23” DNA Enzyme 12192010 10.1074/jbc.M207094200
2013 Kumar, B. Khanna, M. Sequence-Specific Cleavage of BM2 Gene Transcript of Influenza B Virus by 10-23 Catalytic Motif Containing DNA Enzymes Significantly Inhibits Viral RNA Translation and Replication 23971908 10.1089/nat.2013.0432
2010 Smuga, D. Nawrot, B. RNA-cleaving 10–23 deoxyribozyme with a single amino acid-like functionality operates without metal ion cofactors 10.1039/B9NJ00705A
2015 Wang, F. Liu, J. Tandem DNAzymes for mRNA cleavage: choice of enzyme, metal ions and the antisense effect 25769818 10.1016/j.bmcl.2015.02.032
2012 Fokina, A. Fokina, A. Targeting Insulin-like Growth Factor I with 10−23 DNAzymes: 2′-OMethyl Modifications in the Catalytic Core Enhance mRNA Cleavage 22352843 10.1021/bi201532q
2004 Cairns, M. J Cairns, M. J Target-Site Selection for the 10–23 DNAzyme 15017056 10.1385/1-59259-746-7:267
2010 Li, J. Li, J. The 10–23 DNA Enzyme Generated by a Novel Expression Vector Mediate Inhibition of Taco Expression in Macrophage 20059315 10.1089/oli.2009.0217
2012 Miao, J. Zhang, X. G. Inhibition on hepatitis B virus e-gene expression of 10–23 DNAzyme delivered by novel chitosan oligosaccharide–stearic acid micelles 10.1016/j.carbpol.2011.09.022
2008 Wang, T. H. Au, L. C. The Use of 10-23 DNAzyme to Selectively Destroy the Allele of mRNA with a Unique Purine-Pyrimidine Dinucleotide 18699741 10.1089/oli.2008.0138
2010 Richards, J. L. Dmochowski, I. J. Turning the 10–23 DNAzyme On and Off with Light 20077457 10.1002/cbic.200900702
2009 Yu, S. H. Au, L. C. Specific repression of mutant K-RAS by 10–23 DNAzyme: Sensitizing cancer cell to anti-cancer therapies 19014906 10.1016/j.bbrc.2008.11.027
2012 Ruble, B. K. Dmochowski, I. J. Mismatch discrimination and efficient photomodulation with split 10–23 DNAzymes 22544974 10.1016/j.ica.2011.10.068
2021 Rosenbach, H. Span, I. Influence of monovalent metal ions on metal binding and catalytic activity of the 10–23 DNAzyme 33544488 10.1515/hsz-2020-0207
2018 Kamiya, Y. Asanuma, H. Development of Visible-Light-Responsive RNA Scissors Based on a 10–23 DNAzyme 29682882 10.1002/cbic.201800020
2007 Sheng, Y. Miao, J. Hepatitis B virus S gene therapy with 10-23 DNAzyme delivered by chitosan-g-stearic acid micelles 10.1039/C9RA00330D
2005 Zaborowska, Z. Erdmann, V. A. Deletion analysis in the catalytic region of the 10–23 DNA enzyme 15642375 10.1016/j.febslet.2004.12.008
2020 Du, S. He, J. Site-specific functionalization with amino, guanidinium, and imidazolyl groups enabling the activation of 10–23 DNAzyme 10.1039/D0RA02226H
2021 Debiais, M. Smietana, M. Boronic Acid‐Mediated Activity Control of Split 10–23 DNAzymes 33058268 10.1002/chem.202004227
2020 Du, S. He, J. 2′-Functional group of adenosine in 10–23 DNAzyme promotes catalytic activity 31932223 10.1016/j.bmcl.2020.126961
2017 Li, P. He, J. Studies on the Two Thymine Residues in the Catalytic Core of 10-23 DNAzyme: The Impact on the Catalysis of Their 5-Substituted Functional Groups 28640218 10.3390/molecules22071011
2016 Zhou, W. Liu, J. In Vitro Selection of Chromium-Dependent DNAzymes for Sensing Chromium(III) and Chromium(VI) 27249536 10.1002/chem.201601426
2017 Zhou, W. Liu, J. Two Completely Different Mechanisms for Highly Specific Na+ Recognition by DNAzymes 28658518 10.1002/cbic.201700184
2018 Jimmy Huang, P. J. Liu, J. Instantaneous Iodine-Assisted DNAzyme Cleavage of Phosphorothioate RNA. 30272443 10.1021/acs.biochem.8b00900
2015 Vazin, M. Liu, J. Biochemical Characterization of a Lanthanide-Dependent DNAzyme with Normal and Phosphorothioate-Modified Substrates. 26356231 10.1021/acs.biochem.5b00691
2019 Ma, L. Liu, J. From general base to general acid catalysis in a sodium-specific DNAzyme by a guanine-to-adenine mutation 31276580 10.1093/nar/gkz578
2015 Torabi, S. F. Lu, Y. In vitro selection of a sodium-specific DNAzyme and its application in intracellular sensing 25918425 10.1073/pnas.1420361112
2016 Zhou, W. Liu, J. A DNAzyme requiring two different metal ions at two distinct sites 26657636 10.1093/nar/gkv1346
2015 Torabi, S. F. Lu, Y. Identification of the Same Na(+)-Specific DNAzyme Motif from Two In Vitro Selections Under Different Conditions. 26577294 10.1007/s00239-015-9715-7
2000 Li, J. Lu, Y A highly sensitive and selective catalytic DNA biosensor for lead ions 10.1021/ja0021316
2015 Zhou, W. Liu, J. DNAzyme hybridization, cleavage, degradation, and sensing in undiluted human blood serum 25757186 10.1021/acs.analchem.5b00220
2016 Zhou, W. Liu, J. In vitro selection in serum: RNA-cleaving DNAzymes for measuring Ca2+ and Mg2+ 10.1021/acssensors.5b00306
2017 Saran, R. Liu, J. A Silver-Specific DNAzyme with a New Silver Aptamer and Salt-Promoted Activity. 28345892 10.1021/acs.biochem.6b01131
2015 Huang, P. J. J. Liu, J. Desulfurization Activated Phosphorothioate DNAzyme for the Detection of Thallium. 26393365 10.1021/acs.analchem.5b02568
2012 Velez, T. Silverman, S. K. Systematic Evaluation of the Dependence of Deoxyribozyme Catalysis on Random Region Length 23088677 10.1021/co300111f
2019 Shomali, Z. Kompany-Zareh, M. Fluorescence Based Investigation of Temperature-Dependent Pb2+-Specific 8–17E DNAzyme Catalytic Sensor 30778897 10.1007/s10895-019-02346-8
2021 Moon, W. J. Liu, J. Probing Metal-Dependent Phosphate Binding for the Catalysis of the 17E DNAzyme 34106684 10.1021/acs.biochem.1c00091
2008 Kim, H. K Lu, Y. Probing Metal Binding in the 8–17 DNAzyme by TbIII Luminescence Spectroscopy 18688837 10.1002/chem.200701789
2016 Liu, S. Liu, S. Ultrasensitive electrochemical DNAzyme sensor for lead ion based on cleavage-induced template-independent polymerization and alkaline phosphatase amplification 27093488 10.1016/j.bios.2016.04.026
2018 Xu, Q. Zhang, C. Y. A universal DNAzyme-based bioluminescent sensor for label-free detection of biomolecules 30392672 10.1016/j.aca.2018.08.059
2018 Gu, L. Liu, J. Reselection yielding a smaller and more active silver-specific DNAzyme 31458180 10.1021/acsomega.8b02039
2008 Mui, T. P Silverman, S. K Convergent and General One-Step DNA-Catalyzed Synthesis of Multiply Branched DNA 18808125 10.1021/ol801568q
2011 Lee, C. S Silverman, S. K Improved deoxyribozymes for synthesis of covalently branched DNA and RNA 20739352 10.1093/nar/gkq753
2005 Pratico, E Silverman, S. K A deoxyribozyme that synthesizes 20,50-branched RNA with any branch-site nucleotide 15967808 10.1093/nar/gki656
2004 Coppins, R. L Silverman, S. K A DNA enzyme that mimics the first step of RNA splicing 14758353 10.1038/nsmb727
2005 Coppins, R. L Silverman, S. K A Deoxyribozyme that Forms a Three-Helix-Junction Complex with its RNA Substrates and has General RNA Branch-Forming Activity 15740125 10.1021/ja044881b
2005 Wang, Y Silverman, S. K Directing the Outcome of Deoxyribozyme Selections To Favor Native 3 ′-5′ RNA Ligation 15723545 10.1021/bi0478291
2006 Zelin, E Silverman, S. K Adenosine Is Inherently Favored as the Branch-Site RNA Nucleotide in a Structural Context That Resembles Natural RNA Splicing 16503631 10.1021/bi052499l
2008 Kost, D Silverman, S. K Controlling the direction of site-selectivity and regioselectivity in RNA ligation by Zn2+-dependent deoxyribozymes that use 2′,3′-cyclic phosphate RNA substrates 19005599 10.1039/b813566e
2003 Wang, Y Silverman, S. K Deoxyribozymes That Synthesize Branched and Lariat RNA 12783536 10.1021/ja035150z
2003 Wang, Y Silverman, S. K Characterization of Deoxyribozymes That Synthesize Branched RNA 14690435 10.1021/bi0355847
2003 Flynn-Charlebois, A Silverman, S. K Deoxyribozymes with 2′-5′ RNA Ligase Activity 12603132 10.1021/ja028774y
2005 Purtha, W Silverman, S. K General Deoxyribozyme-Catalyzed Synthesis of Native 3′-5′ RNA Linkages 16173722 10.1021/ja0533702
2003 Flynn-Charlebois, A Silverman, S. K In vitro evolution of an RNA-cleaving DNA enzyme into an RNA ligase switches the selectivity from 3'-5' to 2'-5'. 12720447 10.1021/ja0340331
2003 Ricca, B. L Silverman, S. K Optimization and Generality of a Small Deoxyribozyme that Ligates RNA 12860124 10.1016/s0022-2836(03)00654-5
2020 Scheitl, C. P Höbartner, C New Deoxyribozymes for the Native Ligation of RNA. 32796587 10.3390/molecules25163650
2004 Coppins, R. L Silverman, S. K Rational modification of a selection strategy leads to deoxyribozymes that create native 3'-5' RNA linkages. 15600344 10.1021/ja045817x
2004 Prior, T. K Silverman, S. K Structure–function correlations derived from faster variants of a RNA ligase deoxyribozyme 14960718 10.1093/nar/gkh263
2005 Hoadley, K. A Silverman, S. K Zn2+-dependent deoxyribozymes that form natural and unnatural RNA linkages. 15966746 10.1021/bi050146g
2013 Samanta, B Höbartner, C Combinatorial Nucleoside-Deletion-Scanning Mutagenesis of Functional DNA 23371361 10.1002/anie.201208103
2013 Samanta, B Höbartner, C Mutationsanalyse funktionaler DNA durch statistische Nucleosiddeletion 10.1002/ange.201208103
2016 Javadi‐Zarnaghi, F Höbartner, C Functional Hallmarks of a Catalytic DNA that Makes Lariat RNA 26525606 10.1002/chem.201503238
2010 Wachowius, F Höbartner, C Combinatorial Mutation Interference Analysis Reveals Functional Nucleotides Required for DNA Catalysis 20872387 10.1002/anie.201003940
2015 Turriani, E Höbartner, C Mg2+-dependent conformational changes and product release during DNA-catalyzed RNA ligation monitored by Bimane fluorescence 25505142 10.1093/nar/gku1268
2005 Coppins, R. L Silverman, S. K Mimicking the First Step of RNA Splicing: An Artificial DNA Enzyme Can Synthesize Branched RNA Using an Oligonucleotide Leaving Group as a 5′-Exon Analogu 16216067 10.1021/bi0507229
2011 Wachowius, F Höbartner, C Probing Essential Nucleobase Functional Groups in Aptamers and Deoxyribozymes by Nucleotide Analogue Interference Mapping of DNA 21863810 10.1021/ja205894w
2006 Wang, Y Silverman, S. K Experimental Tests of Two Proofreading Mechanisms for 5=-Splice Site Selection 17163761 10.1021/cb6001569
2017 arrocci, T. J Höbartner, C Debranchase-resistant labeling of RNA using the 10DM24 deoxyribozyme and fluorescent modified nucleotides 28984884 10.1039/c7cc06703h
2013 Behera, A. K Baum, D. A Enhanced Deoxyribozyme-Catalyzed RNA Ligation in the Presence of Organic Cosolvents 23529690 10.1002/bip.22191
2007 Höbartner, C Silverman, S. K Engineering a Selective Small-Molecule Substrate Binding Site into a Deoxyribozyme 17694519 10.1002/anie.200702217
2011 Alila, K. O Baum, D. A Modulation of an RNA-branching deoxyribozyme by a small molecule 21258742 10.1039/c0cc04971a
2020 Dehghanian, F  Hojati, Z DMLR: A toolkit for investigation of deoxyribozyme-mediated ligation based on real time PCR 32007270 10.1016/j.bbrc.2020.01.075
2013 Javadi-Zarnaghi, F Höbartner, C Lanthanide Cofactors Accelerate DNA-Catalyzed Synthesis of Branched RNA 23895365 10.1021/ja406162z
2016 Ponce-Salvatierra, A Höbartner, C Crystal structure of a DNA catalyst. 26735012 10.1038/nature16471
2014 Wawrzyniak-Turek, K Höbartner, C Deoxyribozyme-Mediated Ligation for Incorporating EPR Spin Labels and Reporter Groups into RNA 25432745 10.1016/B978-0-12-801122-5.00004-0
2019 Aranda, J Orozco, M An artificial DNAzyme RNA ligase shows a reaction mechanism resembling that of cellular polymerases 10.1038/s41929-019-0290-y
2019 Mattioli, E Calvaresi, M DNAzymes at Work: A DFT Computational Investigation on the Mechanism of 9DB1 30702292 10.1021/acs.jcim.8b00815
2005 Semlow, D. R Silverman, S. K Parallel selections in vitro reveal a preference for 2'-5' RNA ligation upon deoxyribozyme-mediated opening of a 2',3'-cyclic phosphate. 16007488 10.1007/s00239-004-0326-y
2014 Büttner, L Höbartner, C Site-specific labeling of RNA at internal ribose hydroxyl groups: terbium-assisted deoxyribozymes at work 24825547 10.1021/ja503864v
2007 Baum, D. A Silverman, S. K Deoxyribozyme-Catalyzed Labeling of RNA 17394278 10.1002/anie.200700357