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Journal Article
Scientific reports, ISSN 2045-2322, 2015, Volume 5, Issue 1, p. 7655
We predict a novel conformational regime for DNA, where denaturation bubbles form at the tips of plectonemes, and study its properties using coarse-grained simulations... 
ELASTICITY | DYNAMICS | TWEEZERS | SIMULATIONS | MOLECULE | MULTIDISCIPLINARY SCIENCES | Nucleic Acid Denaturation | Thermodynamics | DNA, Superhelical - chemistry | Plasmids - chemistry | DNA, Superhelical - metabolism | Diffusion | Nucleic Acid Conformation | Supercoiling | Biological control | Denaturation | Deoxyribonucleic acid--DNA
Journal Article
Journal of organic chemistry, ISSN 0022-3263, 06/2014, Volume 79, Issue 11, pp. 5062 - 5073
Major efforts are currently being devoted to improving the binding affinity, target specificity, and enzymatic stability of oligonucleotides used for nucleic acid targeting applications in molecular... 
RNASE-H | IN-VITRO | CARBA-ENA | NUCLEOSIDE ANALOGS | L-RIBO | LOCKED NUCLEIC-ACID | DNA | CHEMISTRY, ORGANIC | BASE-PAIRING PROPERTIES | ANTISENSE OLIGONUCLEOTIDES | HYBRIDIZATION PROPERTIES | Oligonucleotides - chemistry | DNA - chemistry | Nucleic Acids - chemistry | Molecular Structure | Nucleic Acid Conformation | Oligonucleotides - chemical synthesis | Uridine - chemistry | Nucleic acids | Chemical properties | Research
Journal Article
New journal of physics, ISSN 1367-2630, 11/2014, Volume 16, Issue 11, pp. 1 - 14
... under conditions far from equilibrium in the B-form. Studying the thermal denaturation is particularly interesting because it provides a direct probe of those interactions... 
neutron scattering | nonlinear lattice dynamics | DNA melting | statistical mechanics | FIBERS | FILMS | PHYSICS, MULTIDISCIPLINARY | MOLECULAR-STRUCTURE | STABILITY | SIZE | NUCLEIC-ACIDS | Thermodynamic models | Neutron scattering | Denaturation | Aqueous environments | Variations | Thermal denaturation | Nucleotides | Deoxyribonucleic acid--DNA | Melting | Fluctuation | Deoxyribonucleic acid | Physics
Journal Article
The Journal of chemical physics, ISSN 0021-9606, 01/2015, Volume 142, Issue 3, p. 034903
Journal Article
Biosensors & bioelectronics, ISSN 0956-5663, 2014, Volume 62, pp. 140 - 144
Journal Article
Lab on a chip, ISSN 1473-0197, 8/2012, Volume 12, Issue 18, pp. 3314 - 3321
Journal Article
Biochemistry (Easton), ISSN 0006-2960, 11/2012, Volume 51, Issue 44, pp. 9014 - 9026
...: phosphate, ribose, and base. Estimates of the increases in solvent accessible surface areas upon RNA denaturation were based on a simple model of unfolded RNA as a combination of helical and single-strand segments... 
ACCESSIBLE SURFACE-AREAS | AQUEOUS-SOLUTIONS | PROTEIN | GLYCINE BETAINE | THERMODYNAMIC ANALYSIS | CRYSTAL-STRUCTURE | BIOCHEMISTRY & MOLECULAR BIOLOGY | HEAT-CAPACITY CHANGES | GUANIDINE-HYDROCHLORIDE | RIBOSWITCH APTAMER DOMAIN | PREFERENTIAL INTERACTION COEFFICIENTS | Nucleic Acid Denaturation | Thermodynamics | Riboswitch - drug effects | Entropy | RNA - drug effects | Nucleic Acid Conformation | RNA - chemistry | Urea - chemistry | Urea | Research | Chemical properties | RNA | Structure
Journal Article
Physical review letters, ISSN 0031-9007, 2007, Volume 98, Issue 3, p. 038103
The dynamics of a loop in DNA molecules at the denaturation transition is studied by scaling arguments and numerical simulations... 
PHYSICS, MULTIDISCIPLINARY | PHASE-TRANSITIONS | Nucleic Acid Denaturation | Thermodynamics | DNA - chemistry | Models, Chemical | Nucleic Acid Conformation | Physics - Statistical Mechanics
Journal Article
Nucleic acids research, ISSN 1362-4962, 2013, Volume 41, Issue 7, pp. 4253 - 4265
...) and chemical denaturation to observe and manipulate RNA dynamics. We demonstrate that the competing interplay between metal ions and denaturant agents provides a platform to extract information that otherwise will remain hidden with current methods... 
LIGAND-BINDING | RNA | RECOGNITION | FLUORESCENCE | PURINE RIBOSWITCH | BIOCHEMISTRY & MOLECULAR BIOLOGY | APTAMER | TRANSITION-STATE | MECHANISMS | GUANINE | ADENINE RIBOSWITCH | Fluorescence Resonance Energy Transfer | Nucleic Acid Denaturation | Ligands | Magnesium - chemistry | Riboswitch | Urea - chemistry
Journal Article