Published in Biochemistry on March 17, 1981
Prediction of hybridization and melting for double-stranded nucleic acids. Biophys J (2004) 5.11
A set of nearest neighbor parameters for predicting the enthalpy change of RNA secondary structure formation. Nucleic Acids Res (2006) 1.67
On the stability of nucleic acid structures in solution: enthalpy-entropy compensations, internal rotations and reversibility. Nucleic Acids Res (1993) 1.60
The contribution of DNA single-stranded order to the thermodynamics of duplex formation. Proc Natl Acad Sci U S A (1991) 1.43
Benchmarking AMBER force fields for RNA: comparisons to NMR spectra for single-stranded r(GACC) are improved by revised χ torsions. J Phys Chem B (2011) 1.15
Unraveling the structural complexity in a single-stranded RNA tail: implications for efficient ligand binding in the prequeuosine riboswitch. Nucleic Acids Res (2011) 1.06
The nuclear magnetic resonance of CCCC RNA reveals a right-handed helix, and revised parameters for AMBER force field torsions improve structural predictions from molecular dynamics. Biochemistry (2013) 1.02
Single-molecule kinetics reveal cation-promoted DNA duplex formation through ordering of single-stranded helices. Biophys J (2013) 0.97
The thermodynamics of template-directed DNA synthesis: base insertion and extension enthalpies. Proc Natl Acad Sci U S A (2003) 0.93
Conformational changes in single-strand DNA as a function of temperature by SANS. Biophys J (2005) 0.93
The reactivity of phosphodiester bonds within linear single-stranded oligoribonucleotides is strongly dependent on the base sequence. Nucleic Acids Res (2002) 0.90
Sequence-dependent elasticity and electrostatics of single-stranded DNA: signatures of base-stacking. Biophys J (2014) 0.82
Pulsed IR heating studies of single-molecule DNA duplex dissociation kinetics and thermodynamics. Biophys J (2014) 0.82
Fluorescence competition assay measurements of free energy changes for RNA pseudoknots. Biochemistry (2010) 0.81
Secondary structure content of the HDV ribozyme in 95% formamide. Nucleic Acids Res (1996) 0.81
Effects of site-specific substitution of 5-fluorouridine on the stabilities of duplex DNA and RNA. Nucleic Acids Res (1995) 0.81
Structural dynamics of a single-stranded RNA-helix junction using NMR. RNA (2014) 0.80
Optimization of an AMBER force field for the artificial nucleic acid, LNA, and benchmarking with NMR of L(CAAU). J Phys Chem B (2014) 0.79
Refined secondary-structure models of the core of yeast and human telomerase RNAs directed by SHAPE. RNA (2014) 0.78
Impact of base pair identity 5' to the spliceosomal branch site adenosine on branch site conformation. RNA (2012) 0.77
Monomeric nature of dengue virus NS3 helicase and thermodynamic analysis of the interaction with single-stranded RNA. Nucleic Acids Res (2014) 0.75
Physics-based all-atom modeling of RNA energetics and structure. Wiley Interdiscip Rev RNA (2017) 0.75
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J Mol Biol (1999) 41.48
Predicting DNA duplex stability from the base sequence. Proc Natl Acad Sci U S A (1986) 21.73
Improved free-energy parameters for predictions of RNA duplex stability. Proc Natl Acad Sci U S A (1986) 19.52
Improved predictions of secondary structures for RNA. Proc Natl Acad Sci U S A (1989) 11.52
Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs. Biochemistry (1998) 9.75
PNA hybridizes to complementary oligonucleotides obeying the Watson-Crick hydrogen-bonding rules. Nature (1993) 8.83
Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proc Natl Acad Sci U S A (1994) 8.06
Predicting optimal and suboptimal secondary structure for RNA. Methods Enzymol (1990) 7.08
Calculating thermodynamic data for transitions of any molecularity from equilibrium melting curves. Biopolymers (1987) 6.96
Base-stacking and base-pairing contributions to helix stability: thermodynamics of double-helix formation with CCGG, CCGGp, CCGGAp, ACCGGp, CCGGUp, and ACCGGUp. Biochemistry (1983) 6.81
RNA structure prediction. Annu Rev Biophys Biophys Chem (1988) 5.75
Structure, dynamics, and energetics of deoxyguanosine . thymidine wobble base pair formation in the self-complementary d(CGTGAATTCGCG) duplex in solution. Biochemistry (1982) 3.76
Evaluation of 2'-modified oligonucleotides containing 2'-deoxy gaps as antisense inhibitors of gene expression. J Biol Chem (1993) 3.70
Salt-dependent conformational transitions in the self-complementary deoxydodecanucleotide d(CGCAATTCGCG): evidence for hairpin formation. Biopolymers (1983) 3.44
Predicting thermodynamic properties of RNA. Methods Enzymol (1995) 3.38
Premelting and melting transitions in the d(CGCGAATTCGCG) self-complementary duplex in solution. Biochemistry (1982) 3.30
Thermodynamics of (dG--dC)3 double-helix formation in water and deuterium oxide. Biochemistry (1981) 3.30
Polymer-supported RNA synthesis and its application to test the nearest-neighbor model for duplex stability. Biochemistry (1986) 3.21
Extra adenosine stacks into the self-complementary d(CGCAGAATTCGCG) duplex in solution. Biochemistry (1982) 3.02
Investigation of the structural basis for thermodynamic stabilities of tandem GU mismatches: solution structure of (rGAGGUCUC)2 by two-dimensional NMR and simulated annealing. Biochemistry (1996) 2.96
Side chain contributions to the stability of alpha-helical structure in peptides. Science (1990) 2.95
Calorimetric and spectroscopic investigation of the helix-to-coil transition of a ribo-oligonucleotide: rA7U7. J Mol Biol (1975) 2.84
Thermodynamic studies of RNA stability. J Biomol Struct Dyn (1984) 2.75
Contributions of dangling end stacking and terminal base-pair formation to the stabilities of XGGCCp, XCCGGp, XGGCCYp, and XCCGGYp helixes. Biochemistry (1985) 2.70
Predicting oligonucleotide affinity to nucleic acid targets. RNA (1999) 2.67
Antisense oligonucleotides inhibit intercellular adhesion molecule 1 expression by two distinct mechanisms. J Biol Chem (1991) 2.65
A comparison of optimal and suboptimal RNA secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison. Nucleic Acids Res (1991) 2.51
Stabilities of consecutive A.C, C.C, G.G, U.C, and U.U mismatches in RNA internal loops: Evidence for stable hydrogen-bonded U.U and C.C.+ pairs. Biochemistry (1991) 2.44
Context dependence of hydrogen bond free energy revealed by substitutions in an RNA hairpin. Science (1992) 2.44
Influence of loop residues on the relative stabilities of DNA hairpin structures. Proc Natl Acad Sci U S A (1988) 2.37
Thermodynamics of single mismatches in RNA duplexes. Biochemistry (1999) 2.36
Calorimetric determination of base-stacking enthalpies in double-helical DNA molecules. Biopolymers (1982) 2.36
Calculation on fluorescence resonance energy transfer on surfaces. Biophys J (1980) 2.35
Uniformly modified 2'-deoxy-2'-fluoro phosphorothioate oligonucleotides as nuclease-resistant antisense compounds with high affinity and specificity for RNA targets. J Med Chem (1993) 2.34
Stability of XGCGCp, GCGCYp, and XGCGCYp helixes: an empirical estimate of the energetics of hydrogen bonds in nucleic acids. Biochemistry (1986) 2.32
Characterization of fully 2'-modified oligoribonucleotide hetero- and homoduplex hybridization and nuclease sensitivity. Nucleic Acids Res (1995) 2.30
Expanded CUG repeat RNAs form hairpins that activate the double-stranded RNA-dependent protein kinase PKR. RNA (2000) 2.25
Thermodynamic characterization of the stability and the melting behavior of a DNA triplex: a spectroscopic and calorimetric study. Proc Natl Acad Sci U S A (1990) 2.18
Implication of RNA structure on antisense oligonucleotide hybridization kinetics. Biochemistry (1992) 2.17
Influence of dangling thymidine residues on the stability and structure of two DNA duplexes. Biochemistry (1988) 2.16
A more unified picture for the thermodynamics of nucleic acid duplex melting: a characterization by calorimetric and volumetric techniques. Proc Natl Acad Sci U S A (1999) 2.16
Enthalpy-entropy compensations in drug-DNA binding studies. Proc Natl Acad Sci U S A (1987) 2.16
Thermal unfolding of a group I ribozyme: the low-temperature transition is primarily disruption of tertiary structure. Biochemistry (1993) 2.13
Laser temperature-jump, spectroscopic, and thermodynamic study of salt effects on duplex formation by dGCATGC. Biochemistry (1989) 2.13
Laser temperature-jump study of stacking in adenylic acid polymers. Biochemistry (1979) 2.12
Influence of the oxidatively damaged adduct 8-oxodeoxyguanosine on the conformation, energetics, and thermodynamic stability of a DNA duplex. Biochemistry (1995) 2.09
Improved parameters for prediction of RNA structure. Cold Spring Harb Symp Quant Biol (1987) 2.08
Thermodynamics and structure of a DNA tetraplex: a spectroscopic and calorimetric study of the tetramolecular complexes of d(TG3T) and d(TG3T2G3T). Proc Natl Acad Sci U S A (1992) 2.03
Selective inhibition of mutant Ha-ras mRNA expression by antisense oligonucleotides. J Biol Chem (1992) 1.99
Calorimetric and spectroscopic investigation of drug-DNA interactions. I. The binding of netropsin to poly d(AT). Nucleic Acids Res (1983) 1.96
Sequence dependence for the energetics of dangling ends and terminal base pairs in ribonucleic acid. Biochemistry (1987) 1.95
Energetics of internal GU mismatches in ribooligonucleotide helixes. Biochemistry (1986) 1.92
Free energy contributions of G.U and other terminal mismatches to helix stability. Biochemistry (1986) 1.92
Spectroscopic and calorimetric characterizations of DNA duplexes containing 2-aminopurine. Biochemistry (1996) 1.88
Origins of netropsin binding affinity and specificity: correlations of thermodynamic and structural data. Proc Natl Acad Sci U S A (1987) 1.83
Effect of tetramethylammonium ion on the helix-to-coil transition of poly(deoxyadenylylthymidine): a nuclear magnetic resonance and calorimetric investigation. Biochemistry (1981) 1.83
Effects of phosphorothioate capping on antisense oligonucleotide stability, hybridization and antiviral efficacy versus herpes simplex virus infection. Nucleic Acids Res (1991) 1.80
Thermodynamics of three-way multibranch loops in RNA. Biochemistry (2001) 1.78
Effects of GA mismatches on the structure and thermodynamics of RNA internal loops. Biochemistry (1990) 1.76
Tetraplex formation of a guanine-containing nonameric DNA fragment. Science (1990) 1.75
Solvent effects on the stability of A7U7p. Biochemistry (1985) 1.73
Thermodynamic study of internal loops in oligoribonucleotides: symmetric loops are more stable than asymmetric loops. Biochemistry (1991) 1.71
Oligodeoxynucleotides containing 2'-O-modified adenosine: synthesis and effects on stability of DNA:RNA duplexes. Biochemistry (1993) 1.71
Nearest-neighbor parameters for G.U mismatches: [formula; see text] is destabilizing in the contexts [formula; see text] and [formula; see text] but stabilizing in [formula; see text]. Biochemistry (1991) 1.70
Structure of (rGGCGAGCC)2 in solution from NMR and restrained molecular dynamics. Biochemistry (1993) 1.70
Dynamics of ribozyme binding of substrate revealed by fluorescence-detected stopped-flow methods. Science (1992) 1.69
Secondary structure model of the RNA recognized by the reverse transcriptase from the R2 retrotransposable element. RNA (1997) 1.68
Calorimetric and spectroscopic investigation of the helix-to-coil transition of the self-complementary deoxyribonucleotide ATGCAT. Biophys Chem (1981) 1.67
Relative thermodynamic stability of DNA, RNA, and DNA:RNA hybrid duplexes: relationship with base composition and structure. Biochemistry (1995) 1.65
Thermodynamic and spectroscopic study of bulge loops in oligoribonucleotides. Biochemistry (1990) 1.63
Effects of RNA secondary structure on cellular antisense activity. Nucleic Acids Res (2000) 1.60
A model for the stabilities of RNA hairpins based on a study of the sequence dependence of stability for hairpins of six nucleotides. Biochemistry (1994) 1.58
Pseudo--half-knot formation with RNA. Science (1992) 1.58
CT pulmonary angiography in elderly patients: outcomes in patients aged >85 years. Clin Radiol (2012) 1.57
A periodic table of symmetric tandem mismatches in RNA. Biochemistry (1995) 1.55
Structure and energetics of a hexanucleotide duplex with stacked trinucleotide ends formed by the sequence d(GAATTCGCG). Biochemistry (1982) 1.53
Contribution of loops and nicks to the formation of DNA dumbbells: melting behavior and ligand binding. Biochemistry (1993) 1.53