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Prasher P, Sharma M, Zacconi F, Gupta G, Aljabali AA, Mishra V, Tambuwala MM, Kapoor DN, Negi P, Andreoli Pinto TDJ, Singh I, Chellappan DK, Dua K. Synthesis and Anticancer Properties of ‘Azole’ Based Chemotherapeutics as Emerging Chemical Moieties: A Comprehensive Review. CURR ORG CHEM 2021. [DOI: 10.2174/1385272824999200820152501] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Azole frameworks serve as privileged scaffolds in the contemporary drug design
paradigm owing to their unique physicochemical profile that promotes the development
of highly selective, physiological benevolent chemotherapeutics. Several azole nuclei
function as bioisostere in medicinal chemistry and prompt the development of tailored
therapeutics for targeting the desired biological entities. Besides, the azole scaffold forms
an integral part in the advanced drug designing methodologies, such as target template insitu
drug synthesis, that assists in rapid identification of the hit molecules form a diverse
pool of leads; and direct biomolecule-drug conjugation, along with bioorthogonal strategies
that ensure localization, and superior target specificity of the directed therapeutic.
Lastly, the structural diversity of azole framework and high yielding click synthetic methods
provide a comprehensive Structure-Activity Relationship analysis for design optimization of the potential
drug molecules by fine-tuning the placement of different substituents critical for the activity. This review provides
a comprehensive analysis of the synthesis and anticancer potential of azole based chemotherapeutics.
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Affiliation(s)
- Parteek Prasher
- Department of Chemistry, University of Petroleum & Energy Studies, Dehradun 248007, India
| | - Mousmee Sharma
- Department of Chemistry, Uttaranchal University, Arcadia Grant, Dehradun 248007, India
| | - Flavia Zacconi
- Departamento de Quimica Organica, Facultad de Quimica y de Farmacia, Pontificia Universidad Catolica de Chile, Av. Vicuna Mackenna 4860, Macul, Santiago 7820436, Chile
| | - Gaurav Gupta
- School of Pharmacy, Suresh Gyan Vihar University, Jagatpura 302 017, Jaipur, India
| | - Alaa A.A. Aljabali
- Faculty of Pharmacy, Department of Pharmaceutics and Pharmaceutical Technology, Yarmouk University, Irbid, Jordan
| | - Vijay Mishra
- School of Pharmaceutical Sciences, Lovely Professional University, Phagwara, Punjab, 144411, India
| | - Murtaza M. Tambuwala
- School of Pharmacy and Pharmaceutical Science, Ulster University, Coleraine, County Londonderry, Northern Ireland BT52 1SA, United Kingdom
| | - Deepak N. Kapoor
- School of Pharmaceutical Sciences, Shoolini University of Biotechnology and Management Sciences, Post box no. 9, Solan, Himachal Pradesh 173 229, India
| | - Poonam Negi
- School of Pharmaceutical Sciences, Shoolini University of Biotechnology and Management Sciences, Post box no. 9, Solan, Himachal Pradesh 173 229, India
| | - Terezinha de Jesus Andreoli Pinto
- Department of Pharmacy, Faculty of Pharmaceutical Sciences, University of São Paulo, Professor Lineu Prestes Street, São Paulo 05508-000, Brazil
| | - Inderbir Singh
- Chitkara College of Pharmacy, Chitkara University, Punjab, 140401, India
| | - Dinesh K. Chellappan
- Department of Life Sciences, School of Pharmacy, International Medical University, Bukit Jalil, Kuala Lumpur 57000, Malaysia
| | - Kamal Dua
- Discipline of Pharmacy, Graduate School of Health, University of Technology Sydney, Sydney, NSW 2007, Australia
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2
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Ligand-Based Stability Changes in Duplex DNA Measured with a Microscale Electrochemical Platform. BIOSENSORS-BASEL 2019; 9:bios9020054. [PMID: 31013753 PMCID: PMC6628196 DOI: 10.3390/bios9020054] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/12/2019] [Revised: 04/03/2019] [Accepted: 04/09/2019] [Indexed: 01/20/2023]
Abstract
Development of technologies for rapid screening of DNA secondary structure thermal stability and the effects on stability for binding of small molecule drugs is important to the drug discovery process. In this report, we describe the capabilities of an electrochemical, microdevice-based approach for determining the melting temperatures (Tm) of electrode-bound duplex DNA structures. We also highlight new features of the technology that are compatible with array development and adaptation for high-throughput screening. As a foundational study to exhibit device performance and capabilities, melting-curve analyses were performed on 12-mer DNA duplexes in the presence/absence of two binding ligands: diminazene aceturate (DMZ) and proflavine. By measuring electrochemical current as a function of temperature, our measurement platform has the ability to determine the effect of binding ligands on Tm values with high signal-to-noise ratios and good reproducibility. We also demonstrate that heating our three-electrode cell with either an embedded microheater or a thermoelectric module produces similar results. The ΔTm values we report show the stabilizing ability of DMZ and proflavine when bound to duplex DNA structures. These initial proof-of-concept studies highlight the operating characteristics of the microdevice platform and the potential for future application toward other immobilized samples.
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Habib A, Bhatti HN, Iqbal M, Asim S, Mansha A. 4-Acetamidophenol Binding Mechanism with DNA by UV-Vis and FTIR Techniques Based on Binding Energy, LUMO and HOMO Orbitals and Geometry of Molecule. Z PHYS CHEM 2019. [DOI: 10.1515/zpch-2018-1340] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Present study was conducted to appraise the interaction mechanism of 4-acetamidophenol (4-AP) with DNA based on UV-Vis and FTIR techniques based on binding energy, isolated atomic energy, LUMO and HOMO orbitals gap and geometry of molecule. Analysis revealed the groove binding and intercalation mode of interaction between 4-AP and DNA since hyperchromic and bathochromic shifts were observed in response of interaction of DNA. The planar part of interacting molecule intercalated with DNA and non-planar part of 4-acetamidophenol bounded with DNA (groove binding). The constants for binding between 4-AP and DNA were calculated and 20.12 × 103 mol−1 dm3 binding constant was recorded at pH 4.7, whereas this value was 5.32 × 103 mol−1 dm3 for the pH 7.4. The binding constant value for interaction of 4-AP with DNA revealed the possibility of oral administration of 4-AP. The 4-AP binding with DNA is spontaneous process, which was confirmed from negative value of free energy at room temperature. FTIR study revealed that C–H and C=C (aromatic) functional groups were involved in binding at pH 4.7 and C=O (amide) was involved in groove binding, whereas C–H (aromatic) was responsible for intercalation at pH 7.4 and C–H (alkaline) and C=O (amide) were responsible for groove binding at pH 4.7.
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Affiliation(s)
- Aqsa Habib
- Department of Chemistry , University of Agriculture , Faisalabad-38040 , Pakistan
| | - Haq Nawaz Bhatti
- Department of Chemistry , University of Agriculture , Faisalabad-38040 , Pakistan
| | - Munawar Iqbal
- Department of Chemistry , The University of Lahore , Lahore , Pakistan
| | - Sadia Asim
- Department of Chemistry , University of Agriculture , Faisalabad-38040 , Pakistan
- Department of Chemistry , Government College Women University , Faisalabad , Pakistan
| | - Asim Mansha
- Department of Chemistry , Government College Women University , Faisalabad , Pakistan
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4
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Tutuncu S, Guloglu S, Kucukakdag A, Cetinkol OP. Selective High Binding Affinity of Azacyanines to polyd(A) polyd(T)⋅polyd(T) Triplex: The Effect of Chain Length and Branching on Stabilization, Selectivity and Affinity. ChemistrySelect 2018. [DOI: 10.1002/slct.201802802] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Serra Tutuncu
- Biomedical Engineering ProgramMiddle East Technical University 06800, Çankaya Ankara Turkey
| | - Sercan Guloglu
- Biochemistry ProgramMiddle East Technical University 06800, Çankaya Ankara Turkey
| | - Ayca Kucukakdag
- Department of ChemistryMiddle East Technical University 06800 Çankaya Ankara Turkey
| | - Ozgul Persil Cetinkol
- Biomedical Engineering ProgramMiddle East Technical University 06800, Çankaya Ankara Turkey
- Biochemistry ProgramMiddle East Technical University 06800, Çankaya Ankara Turkey
- Department of ChemistryMiddle East Technical University 06800 Çankaya Ankara Turkey
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5
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Ye D, Zuo X, Fan C. DNA Nanotechnology-Enabled Interfacial Engineering for Biosensor Development. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2018; 11:171-195. [PMID: 29490188 DOI: 10.1146/annurev-anchem-061417-010007] [Citation(s) in RCA: 71] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Biosensors represent biomimetic analytical tools for addressing increasing needs in medical diagnosis, environmental monitoring, security, and biodefense. Nevertheless, widespread real-world applications of biosensors remain challenging due to limitations of performance, including sensitivity, specificity, speed, and reproducibility. In this review, we present a DNA nanotechnology-enabled interfacial engineering approach for improving the performance of biosensors. We first introduce the main challenges of the biosensing interfaces, especially under the context of controlling the DNA interfacial assembly. We then summarize recent progress in DNA nanotechnology and efforts to harness DNA nanostructures to engineer various biological interfaces, with a particular focus on the use of framework nucleic acids. We also discuss the implementation of biosensors to detect physiologically relevant nucleic acids, proteins, small molecules, ions, and other biomarkers. This review highlights promising applications of DNA nanotechnology in interfacial engineering for biosensors and related areas.
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Affiliation(s)
- Dekai Ye
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility (SSRF), Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China;
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiaolei Zuo
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility (SSRF), Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China;
- Institute of Molecular Medicine, Renji Hospital, Schools of Medicine and Chemistry and Chemical Engineering, Shanghai Jiao Tong University, Shanghai 200127, China
| | - Chunhai Fan
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility (SSRF), Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China;
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6
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Oliveira VA, Iglesias BA, Auras BL, Neves A, Terenzi H. Photoactive meso-tetra(4-pyridyl)porphyrin-tetrakis-[chloro(2,2′bipyridine)platinum(ii) derivatives recognize and cleave DNA upon irradiation. Dalton Trans 2017; 46:1660-1669. [DOI: 10.1039/c6dt04634g] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Photoactive platinum porphyrins may be interesting as photosensitizers in photodynamic therapy and photochemotherapy, and we demonstrate their activity towards DNA cleavage under exposure to light.
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Affiliation(s)
- Vanessa A. Oliveira
- Centro de Biologia Molecular Estrutural
- Universidade Federal de Santa Catarina
- Florianópolis
- Brazil
| | | | - Bruna L. Auras
- Departamento de Química
- Universidade Federal de Santa Catarina
- Florianópolis
- Brazil
| | - Ademir Neves
- Departamento de Química
- Universidade Federal de Santa Catarina
- Florianópolis
- Brazil
| | - Hernán Terenzi
- Centro de Biologia Molecular Estrutural
- Universidade Federal de Santa Catarina
- Florianópolis
- Brazil
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7
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Melaine F, Coilhac C, Roupioz Y, Buhot A. A nanoparticle-based thermo-dynamic aptasensor for small molecule detection. NANOSCALE 2016; 8:16947-16954. [PMID: 27714066 DOI: 10.1039/c6nr04868d] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Small molecules (MW < 1000 Da) represent a large class of biomarkers of interest. Recently, a new class of biosensors has been emerging thanks to the recognition properties of aptamers, short DNA or RNA single strands, selected against such small molecular targets. Among them, an adenosine-specific aptamer has been largely described and used due to its remarkable affinity to this small target (KD = 6 μM). In this paper, we achieved the proof-of-principle of an aptasensor based on the thermodynamic follow-up of adenosine binding with engineered split-aptamer sequences. The detection is carried out by surface plasmon resonance imaging of split-aptamer micro-arrays, while signal amplification is ensured by gold nanoparticles (AuNPs). This original approach based on DNA sequence engineering and AuNP conjugation enabled us to reach limits of detection (LOD) 200 times lower than the KD measured in solution with the native aptamer (LOD = 30 nM).
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Affiliation(s)
- Feriel Melaine
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
| | - Clothilde Coilhac
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
| | - Yoann Roupioz
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
| | - Arnaud Buhot
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
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8
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Qiao W, Chiang HC, Xie H, Levicky R. Surface vs. solution hybridization: effects of salt, temperature, and probe type. Chem Commun (Camb) 2016; 51:17245-8. [PMID: 26459915 DOI: 10.1039/c5cc06674c] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Hybridization thermodynamics on solid supports are compared with those in solution for two types of hybridization probe, DNA and uncharged morpholino oligonucleotides of identical sequences. Trends in hybridization affinity are discussed with respect to ionic strength, temperature, and surface behavior.
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Affiliation(s)
- Wanqiong Qiao
- Dept. of Chemical & Biomolecular Engineering, NYU Polytechnic School of Engineering, 6 MetroTech Center, Brooklyn, NY 11201, USA.
| | - Hao-Chun Chiang
- Dept. of Chemical & Biomolecular Engineering, NYU Polytechnic School of Engineering, 6 MetroTech Center, Brooklyn, NY 11201, USA.
| | - Hui Xie
- Dept. of Chemical & Biomolecular Engineering, NYU Polytechnic School of Engineering, 6 MetroTech Center, Brooklyn, NY 11201, USA.
| | - Rastislav Levicky
- Dept. of Chemical & Biomolecular Engineering, NYU Polytechnic School of Engineering, 6 MetroTech Center, Brooklyn, NY 11201, USA.
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9
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Chen Z, Li J. A new method applicable to study solid compounds with multiple polyhedral structures. J Comput Chem 2016; 37:1476-83. [DOI: 10.1002/jcc.24360] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2016] [Revised: 02/16/2016] [Accepted: 02/22/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Zhenlian Chen
- Ningbo Institute of Material Technology and Engineering, Chinese Academy of Sciences; Ningbo 315201 People's Republic of China
| | - Jun Li
- Ningbo Institute of Material Technology and Engineering, Chinese Academy of Sciences; Ningbo 315201 People's Republic of China
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10
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He Y, Shang Y, Liu Y, Zhao S, Liu H. Melting dynamics of short dsDNA chains in saline solutions. SPRINGERPLUS 2015; 4:777. [PMID: 26697287 PMCID: PMC4679706 DOI: 10.1186/s40064-015-1581-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/30/2015] [Accepted: 12/02/2015] [Indexed: 11/10/2022]
Abstract
DNA melting has attracted much attention due to its importance in understanding the life-reproduction and metabolism and in the applications of modern DNA-based technologies. While numerous works have been contributed to the determination of melting profiles in diverse environments, the understanding of DNA melting dynamics is still limited. By employing three-site-per-nucleotide (3SPN) double-stranded DNA (dsDNA) model, we here demonstrate the melting dynamics of an isolated short dsDNA under different conditions (different temperatures, ionic concentrations and DNA chain lengths) can be accessed by coarse-grained simulation studies. We particularly show that at dilute ionic concentration the dsDNA, regardless being symmetric or asymmetric, opens at both ends with roughly equal probabilities, while at high ionic concentration the asymmetric dsDNA chain opens at the A-T-rich end. The comparisons of our simulation results to available data are discussed, and overall good agreements have been found.
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Affiliation(s)
- Yichen He
- State Key Laboratory of Chemical Engineering and Department of Chemistry, East China University of Science and Technology, Shanghai, 200237 China
| | - Yazhuo Shang
- State Key Laboratory of Chemical Engineering and Department of Chemistry, East China University of Science and Technology, Shanghai, 200237 China
| | - Yu Liu
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai, 200237 China
| | - Shuangliang Zhao
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai, 200237 China
| | - Honglai Liu
- State Key Laboratory of Chemical Engineering and Department of Chemistry, East China University of Science and Technology, Shanghai, 200237 China
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11
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Yang AHJ, Hsieh K, Patterson AS, Ferguson BS, Eisenstein M, Plaxco KW, Soh HT. Accurate zygote-specific discrimination of single-nucleotide polymorphisms using microfluidic electrochemical DNA melting curves. Angew Chem Int Ed Engl 2014; 53:3163-7. [PMID: 24520069 PMCID: PMC3992926 DOI: 10.1002/anie.201310059] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2013] [Indexed: 01/17/2023]
Abstract
We report the first electrochemical system for the detection of single-nucleotide polymorphisms (SNPs) that can accurately discriminate homozygous and heterozygous genotypes using microfluidics technology. To achieve this, our system performs real-time melting-curve analysis of surface-immobilized hybridization probes. As an example, we used our sensor to analyze two SNPs in the apolipoprotein E (ApoE) gene, where homozygous and heterozygous mutations greatly affect the risk of late-onset Alzheimer's disease. Using probes specific for each SNP, we simultaneously acquired melting curves for probe-target duplexes at two different loci and thereby accurately distinguish all six possible ApoE allele combinations. Since the design of our device and probes can be readily adapted for targeting other loci, we believe that our method offers a modular platform for the diagnosis of SNP-based diseases and personalized medicine.
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Affiliation(s)
- Allen H. J. Yang
- Department of Mechanical Engineering, University of California Santa Barbara (USA)
| | - Kuangwen Hsieh
- Department of Mechanical Engineering, University of California Santa Barbara (USA)
| | - Adriana S. Patterson
- Department of Chemistry and Biochemistry and Biomolecular Science and Engineering Program, University of California, Santa Barbara (USA)
| | - B. Scott Ferguson
- Department of Mechanical Engineering, University of California Santa Barbara (USA)
| | - Michael Eisenstein
- Department of Mechanical Engineering, University of California Santa Barbara (USA)
| | - Kevin W. Plaxco
- Department of Chemistry and Biochemistry and Biomolecular Science and Engineering Program, University of California, Santa Barbara (USA)
| | - H. Tom Soh
- Materials Department and Department of Mechanical Engineering University of California, Santa Barbara, Santa Barbara, CA 93106 (USA)
- Department of Mechanical Engineering, University of California Santa Barbara (USA)
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12
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Yang AHJ, Hsieh K, Patterson AS, Ferguson BS, Eisenstein M, Plaxco KW, Soh HT. Accurate Zygote-Specific Discrimination of Single-Nucleotide Polymorphisms Using Microfluidic Electrochemical DNA Melting Curves. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201310059] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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13
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Syed SN, Schulze H, Macdonald D, Crain J, Mount AR, Bachmann TT. Cyclic Denaturation and Renaturation of Double-Stranded DNA by Redox-State Switching of DNA Intercalators. J Am Chem Soc 2013; 135:5399-407. [DOI: 10.1021/ja311873t] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Shahida N. Syed
- Division of Pathway Medicine,
School of Biomedical Sciences, The University of Edinburgh, Chancellor’s Building, Little France Crescent, Edinburgh
EH16 4SB, Scotland, U.K
| | - Holger Schulze
- Division of Pathway Medicine,
School of Biomedical Sciences, The University of Edinburgh, Chancellor’s Building, Little France Crescent, Edinburgh
EH16 4SB, Scotland, U.K
| | - Daniel Macdonald
- Division of Pathway Medicine,
School of Biomedical Sciences, The University of Edinburgh, Chancellor’s Building, Little France Crescent, Edinburgh
EH16 4SB, Scotland, U.K
| | - Jason Crain
- School of Physics and Astronomy, The University of Edinburgh, The King’s Buildings,
West Mains Road, Edinburgh EH9 3JZ, Scotland, U.K
- National Physics Laboratory, Hampton Road, Teddington, Middlesex TW11
0LW, England, U.K
| | - Andrew R. Mount
- EastCHEM,
School of Chemistry, The University of Edinburgh, Joseph Black Building,
West Mains Road, Edinburgh EH9 3JJ, Scotland, U.K
| | - Till T. Bachmann
- Division of Pathway Medicine,
School of Biomedical Sciences, The University of Edinburgh, Chancellor’s Building, Little France Crescent, Edinburgh
EH16 4SB, Scotland, U.K
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