| scholarly article | Q13442814 |
| review article | Q7318358 |
| P2093 | author name string | Bustamante C | |
| Tinoco I Jr | |||
| P433 | issue | 2 | |
| P407 | language of work or name | English | Q1860 |
| P304 | page(s) | 271-281 | |
| P577 | publication date | 1999-10-01 | |
| P1433 | published in | Journal of Molecular Biology | Q925779 |
| P1476 | title | How RNA folds | |
| P478 | volume | 293 |
| Q41979786 | 3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures |
| Q28552325 | A Dynamic 3D Graphical Representation for RNA Structure Analysis and Its Application in Non-Coding RNA Classification |
| Q38350635 | A Mg2+-dependent RNA tertiary structure forms in the Bacillus subtilis trp operon leader transcript and appears to interfere with trpE translation control by inhibiting TRAP binding |
| Q47154431 | A New Method to Predict Ion Effects in RNA Folding. |
| Q92883182 | A U⋅U Pair-to-U⋅C Pair Mutation-Induced RNA Native Structure Destabilisation and Stretching-Force-Induced RNA Misfolding |
| Q41641558 | A cellular high-throughput screening approach for therapeutic trans-cleaving ribozymes and RNAi against arbitrary mRNA disease targets |
| Q51038351 | A coarse-grained model with implicit salt for RNAs: predicting 3D structure, stability and salt effect. |
| Q24561451 | A comprehensive comparison of comparative RNA structure prediction approaches |
| Q39967521 | A contact-waiting-time metric and RNA folding rates |
| Q35610021 | A counterintuitive Mg2+-dependent and modification-assisted functional folding of mitochondrial tRNAs |
| Q35178031 | A fast and robust iterative algorithm for prediction of RNA pseudoknotted secondary structures |
| Q38978687 | A heterodinuclear metal complex for direct imaging of rRNA in living cells |
| Q39731513 | A mini-RNA containing the tetraloop, wobble-pair and loop E motifs of the central conserved region of potato spindle tuber viroid is processed into a minicircle |
| Q64230156 | A multi-axial RNA joint with a large range of motion promotes sampling of an active ribozyme conformation |
| Q49615824 | A nucleobase-centered coarse-grained representation for structure prediction of RNA motifs. |
| Q24813158 | A peripheral element assembles the compact core structure essential for group I intron self-splicing. |
| Q52007301 | A permutation-based genetic algorithm for the RNA folding problem: a critical look at selection strategies, crossover operators, and representation issues. |
| Q37215335 | A recurrent magnesium-binding motif provides a framework for the ribosomal peptidyl transferase center |
| Q33741153 | A sensitivity analysis of RNA folding nearest neighbor parameters identifies a subset of free energy parameters with the greatest impact on RNA secondary structure prediction |
| Q24801326 | A statistical analysis of RNA folding algorithms through thermodynamic parameter perturbation |
| Q28544993 | A unique HMG-box domain of mouse Maelstrom binds structured RNA but not double stranded DNA |
| Q42095405 | ATP-dependent roles of the DEAD-box protein Mss116p in group II intron splicing in vitro and in vivo |
| Q36666278 | Ab initio RNA folding by discrete molecular dynamics: from structure prediction to folding mechanisms |
| Q42243267 | Accelerating calculations of RNA secondary structure partition functions using GPUs |
| Q42859251 | Additional roles of a peripheral loop-loop interaction in the Neurospora VS ribozyme |
| Q34975932 | Advances in RNA structure prediction from sequence: new tools for generating hypotheses about viral RNA structure-function relationships |
| Q52604384 | Adventures with RNA graphs. |
| Q40324047 | Altered structural fluctuations in duplex RNA versus DNA: a conformational switch involving base pair opening |
| Q38126601 | An RNA folding motif: GNRA tetraloop-receptor interactions |
| Q24701801 | An RNA trapping mechanism in Alphavirus mRNA promotes ribosome stalling and translation initiation |
| Q36522819 | An alternative mode of microRNA target recognition |
| Q38802095 | An efficient graph kernel method for non-coding RNA functional prediction |
| Q92283832 | An efficient simulated annealing algorithm for the RNA secondary structure prediction with Pseudoknots |
| Q34148178 | Analysis of energy-based algorithms for RNA secondary structure prediction |
| Q42016958 | Analysis of riboswitch structure and function by an energy landscape framework |
| Q47414387 | Analytical description of finite size effects for RNA secondary structures |
| Q36412578 | Argininamide binding arrests global motions in HIV-1 TAR RNA: comparison with Mg2+-induced conformational stabilization |
| Q34032623 | Arginine-rich, cell penetrating peptide-anti-microRNA complexes decrease glioblastoma migration potential |
| Q37394795 | Assembly mechanisms of RNA pseudoknots are determined by the stabilities of constituent secondary structures |
| Q36173423 | Assembly of the five-way junction in the ribosomal small subunit using hybrid MD-Gō simulations |
| Q28731359 | Attenuation of loop-receptor interactions with pseudoknot formation |
| Q35783573 | Automated RNA tertiary structure prediction from secondary structure and low-resolution restraints |
| Q24673712 | Automated de novo prediction of native-like RNA tertiary structures |
| Q64069111 | Automated, customizable and efficient identification of 3D base pair modules with BayesPairing |
| Q34804974 | Battle for the bulge: directing small molecules to DNA and RNA defects |
| Q34460049 | Binding interactions between the core central domain of 16S rRNA and the ribosomal protein S15 determined by molecular dynamics simulations |
| Q39936148 | Biochemical characterization of the kink-turn RNA motif. |
| Q36071540 | Bottlenecks in development of retinal therapeutic post-transcriptional gene silencing agents |
| Q38961905 | Bridging the gap between in vitro and in vivo RNA folding |
| Q37059194 | Catalytic DNA: Scope, Applications, and Biochemistry of Deoxyribozymes |
| Q57167693 | Challenges and Approaches to Predicting RNA with Multiple Functional Structures |
| Q42266431 | Characterizing riboswitch function: identification of Mg2+ binding site in T box antiterminator RNA |
| Q47836962 | Charged probes: turn-on selective fluorescence for RNA. |
| Q46460277 | Classification and predictions of RNA pseudoknots based on topological invariants |
| Q34621190 | Clustering to identify RNA conformations constrained by secondary structure |
| Q37697428 | Coarse grained models reveal essential contributions of topological constraints to the conformational free energy of RNA bulges |
| Q26749123 | Coarse-grained modeling of RNA 3D structure |
| Q38288276 | Collagen Membranes with Ribonuclease Inhibitors for Long-Term Stability of Electrochemical Aptamer-Based Sensors Employing RNA. |
| Q53339901 | Collapse and hybridization of RNA: view from replica technique approach. |
| Q28709001 | CompaRNA: a server for continuous benchmarking of automated methods for RNA secondary structure prediction |
| Q38632683 | Complex RNA folding kinetics revealed by single-molecule FRET and hidden Markov models |
| Q38437211 | Composite RNA aptamers as functional mimics of proteins |
| Q36509098 | Comprehensive features of natural and in vitro selected GNRA tetraloop-binding receptors |
| Q37852524 | Computational approaches to 3D modeling of RNA. |
| Q30850578 | Configurational entropy and mechanical properties of cross-linked polymer chains: implications for protein and RNA folding |
| Q34366788 | Conformational changes involved in initiation of minus-strand synthesis of a virus-associated RNA. |
| Q34335756 | Conformational features of topologically classified RNA secondary structures |
| Q90711171 | Conformational flexibility in the enterovirus RNA replication platform |
| Q42585669 | Conservation of mRNA secondary structures may filter out mutations in Escherichia coli evolution |
| Q24814376 | Constraining ribosomal RNA conformational space |
| Q39700715 | Contact Statistics Highlight Distinct Organizing Principles of Proteins and RNA |
| Q36704583 | Control of macromolecular structure and function using covalently attached double-stranded DNA constraints |
| Q47785328 | Cooperative RNA Folding under Cellular Conditions Arises From Both Tertiary Structure Stabilization and Secondary Structure Destabilization |
| Q38336906 | Cooperative and directional folding of the preQ1 riboswitch aptamer domain |
| Q33355848 | Correlation between the secondary structure of pre-mRNA introns and the efficiency of splicing in Saccharomyces cerevisiae. |
| Q43206630 | Cross-talk between orientation-dependent recognition determinants of a complex control RNA element, the enterovirus oriR. |
| Q34781542 | DNA acting like RNA. |
| Q35578509 | DNA folding and melting observed in real time redefine the energy landscape |
| Q40240924 | Deleterious mutation prediction in the secondary structure of RNAs |
| Q36972871 | Deletion of the P5abc peripheral element accelerates early and late folding steps of the Tetrahymena group I ribozyme |
| Q24539901 | Design of multistable RNA molecules |
| Q21284292 | Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics |
| Q51348511 | Determination of low-energy structures of a small RNA hairpin using Monte Carlo-based techniques. |
| Q40156618 | Determination of thermodynamic parameters for HIV DIS type loop-loop kissing complexes |
| Q58008452 | Development and Applications of Coarse-Grained Models for RNA |
| Q36073816 | Development of lead hammerhead ribozyme candidates against human rod opsin mRNA for retinal degeneration therapy |
| Q35132671 | Dielectrophoretic manipulation of ribosomal RNA. |
| Q35853411 | Direct Evidence for Packaging Signal-Mediated Assembly of Bacteriophage MS2 |
| Q41131851 | Direct quantitation of Mg2+-RNA interactions by use of a fluorescent dye. |
| Q34198733 | Discrete RNA libraries from pseudo-torsional space |
| Q34332415 | Discrete structure of an RNA folding intermediate revealed by cryo-electron microscopy |
| Q91735793 | Divalent ions tune the kinetics of a bacterial GTPase center rRNA folding transition from secondary to tertiary structure |
| Q24597768 | DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model |
| Q43373757 | Double Hydrogen Bonding between Side Chain Carboxyl Groups in Aqueous Solutions of Poly (β-L-Malic Acid): Implication for the Evolutionary Origin of Nucleic Acids |
| Q90465256 | Dual Graph Partitioning Highlights a Small Group of Pseudoknot-Containing RNA Submotifs |
| Q36415368 | Dynamics of intramolecular recognition: base-pairing in DNA/RNA near and far from equilibrium |
| Q38756296 | Dynamics of nascent mRNA folding and RNA-protein interactions: an alternative TAR RNA structure is involved in the control of HIV-1 mRNA transcription |
| Q36247149 | Dynamics-based amplification of RNA function and its characterization by using NMR spectroscopy |
| Q47651833 | Effect of single-residue bulges on RNA double-helical structures: crystallographic database analysis and molecular dynamics simulation studies. |
| Q47322123 | Efficient approximations of RNA kinetics landscape using non-redundant sampling. |
| Q24684612 | Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign |
| Q42531989 | Efficient procedures for the numerical simulation of mid-size RNA kinetics |
| Q41968797 | Electrostatic free energy landscapes for nucleic acid helix assembly |
| Q36205577 | Elucidating the higher-order structure of biopolymers by structural probing and mass spectrometry: MS3D |
| Q39492695 | Enhanced specificity against misfolding in a thermostable mutant of the Tetrahymena ribozyme |
| Q34315617 | Enthalpy-driven RNA folding: single-molecule thermodynamics of tetraloop-receptor tertiary interaction |
| Q35779053 | Entropic origin of Mg2+-facilitated RNA folding |
| Q44428737 | Exploration of the transition state for tertiary structure formation between an RNA helix and a large structured RNA. |
| Q38280278 | Exploring the electrostatic energy landscape for tetraloop-receptor docking. |
| Q39758666 | Exploring the repertoire of RNA secondary motifs using graph theory; implications for RNA design |
| Q33862835 | Extended structures in RNA folding intermediates are due to nonnative interactions rather than electrostatic repulsion |
| Q59789891 | Extracting information from RNA SHAPE data: Kalman filtering approach |
| Q33401462 | Finding 3D motifs in ribosomal RNA structures |
| Q25257104 | Fluorescence of covalently attached pyrene as a general RNA folding probe |
| Q37701263 | Folding a stable RNA pseudoknot through rearrangement of two hairpin structures. |
| Q36228464 | Folding path of P5abc RNA involves direct coupling of secondary and tertiary structures |
| Q34255755 | Folding pathways of the Tetrahymena ribozyme |
| Q34176299 | Force-induced denaturation of RNA |
| Q35035429 | Formation of a GNRA tetraloop in P5abc can disrupt an interdomain interaction in the Tetrahymena group I ribozyme |
| Q45109557 | Formation of a ligand-assisted complex of two RNA hairpin loops |
| Q36742536 | Free energy landscapes of RNA/RNA complexes: with applications to snRNA complexes in spliceosomes |
| Q41851850 | Free energy profile of RNA hairpins: a molecular dynamics simulation study |
| Q37021669 | Free-energy landscape of a hyperstable RNA tetraloop |
| Q30402159 | Fully differentiable coarse-grained and all-atom knowledge-based potentials for RNA structure evaluation |
| Q36343097 | GARN2: coarse-grained prediction of 3D structure of large RNA molecules by regret minimization |
| Q35757341 | GARN: Sampling RNA 3D Structure Space with Game Theory and Knowledge-Based Scoring Strategies |
| Q37507905 | Genome-scale characterization of RNA tertiary structures and their functional impact by RNA solvent accessibility prediction |
| Q58570403 | Genome-wide RNA structurome reprogramming by acute heat shock globally regulates mRNA abundance |
| Q52659405 | Global mRNA stability is not associated with levels of gene expression in Drosophila melanogaster but shows a negative correlation with codon bias. |
| Q35137610 | Helix capping in RNA structure |
| Q33723134 | Hierarchy of RNA functional dynamics |
| Q35646838 | High sensitivity RNA pseudoknot prediction |
| Q58093141 | High-Throughput Explorations of RNA Structural Modularity |
| Q89367622 | High-Throughput Investigation of Diverse Junction Elements in RNA Tertiary Folding |
| Q27014673 | High-resolution reversible folding of hyperstable RNA tetraloops using molecular dynamics simulations |
| Q36960961 | High-throughput SHAPE and hydroxyl radical analysis of RNA structure and ribonucleoprotein assembly |
| Q35741124 | High-throughput cellular RNA device engineering. |
| Q39682147 | Highly conserved modified nucleosides influence Mg2+-dependent tRNA folding |
| Q57028812 | How the Conformations of an Internal Junction Contribute to Fold an RNA Domain |
| Q92879121 | How to benchmark RNA secondary structure prediction accuracy |
| Q82906978 | Identification of antisense RNA stem-loops that inhibit RNA-protein interactions using a bacterial reporter system |
| Q24791733 | Identification of antisense nucleic acid hybridization sites in mRNA molecules with self-quenching fluorescent reporter molecules |
| Q34775534 | Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme |
| Q40293008 | Induced coalescence of cations through low-temperature Poisson-Boltzmann calculations |
| Q54683042 | Influence of secondary structure on recovery from pauses during early stages of RNA transcription. |
| Q36514140 | Information-theoretic uncertainty of SCFG-modeled folding space of the non-coding RNA. |
| Q28484429 | Integrating chemical footprinting data into RNA secondary structure prediction |
| Q58445523 | Interactions of hydrated divalent metal cations with nucleic acid bases. How to relate the gas phase data to solution situation and binding selectivity in nucleic acids |
| Q54454465 | Interplay between single-stranded binding proteins on RNA secondary structure. |
| Q36238166 | Ion-mediated RNA structural collapse: effect of spatial confinement. |
| Q34698707 | Ion-mediated nucleic acid helix-helix interactions |
| Q35735200 | Ionic strength-dependent persistence lengths of single-stranded RNA and DNA. |
| Q44402746 | Kinetic Monte Carlo approach to RNA folding dynamics using structure-based models |
| Q37213759 | Kinetic and thermodynamic framework for P4-P6 RNA reveals tertiary motif modularity and modulation of the folding preferred pathway |
| Q51945689 | Kinetics of interior loop formation in semiflexible chains. |
| Q33322069 | KnotSeeker: heuristic pseudoknot detection in long RNA sequences. |
| Q54559500 | L-arginine influences the structure and function of arginase mRNA in Aspergillus nidulans. |
| Q39485077 | Large deviations for random trees and the branching of RNA secondary structures |
| Q97542184 | LinearPartition: linear-time approximation of RNA folding partition function and base-pairing probabilities |
| Q33311658 | Loop dependence of the stability and dynamics of nucleic acid hairpins |
| Q87936940 | MCTBI: a web server for predicting metal ion effects in RNA structures |
| Q57387718 | MLP accompanied beam search for the resonance assignment problem |
| Q27324802 | MMB-GUI: a fast morphing method demonstrates a possible ribosomal tRNA translocation trajectory. |
| Q36858478 | MS3D structural elucidation of the HIV-1 packaging signal |
| Q42763894 | Many-body effect in ion binding to RNA. |
| Q41767514 | McGenus: a Monte Carlo algorithm to predict RNA secondary structures with pseudoknots |
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| Q34181000 | Mechanically probing the folding pathway of single RNA molecules |
| Q43059507 | Mechanism of T7 RNAP pausing and termination at the T7 concatemer junction: a local change in transcription bubble structure drives a large change in transcription complex architecture |
| Q37326624 | Metal ion dependence, thermodynamics, and kinetics for intramolecular docking of a GAAA tetraloop and receptor connected by a flexible linker |
| Q34225437 | Metal ions: supporting actors in the playbook of small ribozymes |
| Q46103994 | Methods of site-specific labeling of RNA with fluorescent dyes |
| Q89696227 | Mg2+ Impacts the Twister Ribozyme through Push-Pull Stabilization of Nonsequential Phosphate Pairs |
| Q39808443 | Microenvironment analysis and identification of magnesium binding sites in RNA |
| Q37361859 | Minimal models for proteins and RNA from folding to function |
| Q99573739 | Modeling Loop Composition and Ion Concentration Effects in RNA Hairpin Folding Stability |
| Q57455867 | Modeling Structure, Stability, and Flexibility of Double-Stranded RNAs in Salt Solutions |
| Q35779406 | Modeling and design by hierarchical natural moves |
| Q35024518 | Modelling RNA folding under mechanical tension |
| Q24798650 | Modular RNA architecture revealed by computational analysis of existing pseudoknots and ribosomal RNAs |
| Q31971747 | Modulation of RNA function by oligonucleotides recognizing RNA structure |
| Q88587796 | Molecular Mechanism for Folding Cooperativity of Functional RNAs in Living Organisms |
| Q43853908 | Molecular dynamics simulations of the denaturation and refolding of an RNA tetraloop |
| Q28703593 | Molecular paleontology: a biochemical model of the ancestral ribosome |
| Q59284530 | Molecular phylogeny of the hyperdiverse genusSarcophaga(Diptera: Sarcophagidae), and comparison between algorithms for identification of rogue taxa |
| Q36355164 | Molecular simulations and Markov state modeling reveal the structural diversity and dynamics of a theophylline-binding RNA aptamer in its unbound state |
| Q36908379 | Monovalent and divalent promoted GAAA tetraloop-receptor tertiary interactions from freely diffusing single-molecule studies |
| Q41083340 | Monte Carlo Tightly Bound Ion Model: Predicting Ion-Binding Properties of RNA with Ion Correlations and Fluctuations |
| Q40313525 | Monte Carlo simulation for single RNA unfolding by force |
| Q35743160 | MultiSETTER: web server for multiple RNA structure comparison |
| Q58570346 | Multiple prebiotic metals mediate translation |
| Q45326202 | NF90-NF45 is a selective RNA chaperone that rearranges viral and cellular riboswitches: biochemical analysis of a virus host factor activity. |
| Q30956860 | NMR studies of the structure and Mg2+ binding properties of a conserved RNA motif of EMCV picornavirus IRES element |
| Q33626227 | Non-nearest-neighbor dependence of stability for group III RNA single nucleotide bulge loops |
| Q36879547 | Non-nearest-neighbor dependence of the stability for RNA bulge loops based on the complete set of group I single-nucleotide bulge loops |
| Q34415400 | Non-nearest-neighbor dependence of the stability for RNA group II single-nucleotide bulge loops |
| Q42264115 | Non-specific binding of Na+ and Mg2+ to RNA determined by force spectroscopy methods |
| Q35447374 | Noncanonical secondary structure stabilizes mitochondrial tRNA(Ser(UCN)) by reducing the entropic cost of tertiary folding. |
| Q33949652 | Nonhierarchical ribonucleoprotein assembly suggests a strain-propagation model for protein-facilitated RNA folding |
| Q35130667 | Nonspecific binding to structured RNA and preferential unwinding of an exposed helix by the CYT-19 protein, a DEAD-box RNA chaperone |
| Q40409798 | Novel Approach to Analyzing MFE of Noncoding RNA Sequences |
| Q34354064 | Nucleic acid helix stability: effects of salt concentration, cation valence and size, and chain length |
| Q43082328 | Observed versus predicted structure of fluorescent self-quenching reporter molecules (SQRM): caveats with respect to the use of "stem-loop" oligonucleotides as probes for mRNA folding |
| Q33913266 | On the significance of an RNA tertiary structure prediction |
| Q47566705 | Opportunities and Challenges in RNA Structural Modeling and Design |
| Q35007088 | Perspective: Reaches of chemical physics in biology |
| Q53063903 | Photo-physical properties of 2-(1-ethynylpyrene)-adenosine: influence of hydrogen bonding on excited state properties. |
| Q34365424 | Phylogenetic conservation of RNA secondary and tertiary structure in the trpEDCFBA operon leader transcript in Bacillus |
| Q33200026 | Practical and general synthesis of 5'-adenylated RNA (5'-AppRNA). |
| Q36429548 | Predicting 3D Structure, Flexibility, and Stability of RNA Hairpins in Monovalent and Divalent Ion Solutions |
| Q55338474 | Predicting 3D structure and stability of RNA pseudoknots in monovalent and divalent ion solutions. |
| Q40093186 | Predicting Ion Effects in an RNA Conformational Equilibrium. |
| Q92949538 | Predicting Monovalent Ion Correlation Effects in Nucleic Acids |
| Q42530587 | Predicting RNA pseudoknot folding thermodynamics |
| Q50580049 | Predicting RNA-RNA Interactions Using RNAstructure. |
| Q33766709 | Predicting RNA-binding residues from evolutionary information and sequence conservation |
| Q37760981 | Predicting and modeling RNA architecture |
| Q34099007 | Predicting ion binding properties for RNA tertiary structures |
| Q42326406 | Predicting ion-nucleic acid interactions by energy landscape-guided sampling |
| Q33795566 | Predicting secondary structural folding kinetics for nucleic acids. |
| Q24805851 | Predicting the secondary structures and tertiary interactions of 211 group I introns in IE subgroup. |
| Q33538211 | Prediction of RNA multiloop and pseudoknot conformations from a lattice-based, coarse-grain tertiary structure model |
| Q33299471 | Prediction of RNA pseudoknots using heuristic modeling with mapping and sequential folding |
| Q55408856 | Principles for targeting RNA with drug-like small molecules |
| Q34135131 | ProbKnot: fast prediction of RNA secondary structure including pseudoknots |
| Q36328880 | Probing the structural hierarchy and energy landscape of an RNA T-loop hairpin |
| Q36791606 | Probing-directed identification of novel structured RNAs |
| Q85231707 | Purine biosynthetic intermediate-containing ribose-phosphate polymers as evolutionary precursors to RNA |
| Q30304561 | Quantifying the energetic interplay of RNA tertiary and secondary structure interactions |
| Q33372289 | Quantitative rRNA-targeted solution-based hybridization assay using peptide nucleic acid molecular beacons |
| Q47756940 | Quantitative tests of a reconstitution model for RNA folding thermodynamics and kinetics |
| Q36228030 | RAG-3D: a search tool for RNA 3D substructures |
| Q47700694 | RNA Cloaking by Reversible Acylation. |
| Q79284200 | RNA Denaturation: Excluded Volume, Pseudoknots, and Transition Scenarios |
| Q89628567 | RNA Droplets |
| Q43032456 | RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures |
| Q90248829 | RNA Structural Differentiation: Opportunities with Pattern Recognition |
| Q47235409 | RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview. |
| Q42388023 | RNA Structural Modules Control the Rate and Pathway of RNA Folding and Assembly. |
| Q27490443 | RNA conformational changes in the life cycles of RNA viruses, viroids, and virus-associated RNAs |
| Q34971727 | RNA folding energy landscapes. |
| Q58429738 | RNA folding in the presence of counterions |
| Q34749895 | RNA folding in vivo |
| Q27323936 | RNA folding pathways in stop motion |
| Q33879864 | RNA folding: beyond Watson-Crick pairs |
| Q35753774 | RNA helix stability in mixed Na+/Mg2+ solution |
| Q24656891 | RNA misfolding and the action of chaperones |
| Q27472811 | RNA molecules with structure dependent functions are uniquely folded |
| Q51920172 | RNA secondary structure design. |
| Q39704490 | RNA secondary structure modeling at consistent high accuracy using differential SHAPE. |
| Q91496498 | RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning |
| Q53856464 | RNA secondary structure prediction with pseudoknots: Contribution of algorithm versus energy model. |
| Q40900624 | RNA stem-loop enhanced expression of previously non-expressible genes |
| Q37301668 | RNA structure and modeling: progress and techniques |
| Q36376536 | RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. |
| Q35853409 | RNA-Puzzles: a CASP-like evaluation of RNA three-dimensional structure prediction |
| Q42919455 | RNA-SSPT: RNA Secondary Structure Prediction Tools |
| Q36954094 | RNAstructure: Web servers for RNA secondary structure prediction and analysis |
| Q47552335 | RNase If -treated quantitative PCR for dsRNA quantitation of RNAi trait in genetically modified crops. |
| Q34047327 | Rapid compaction during RNA folding |
| Q39645881 | Rapid formation of a solvent-inaccessible core in the Neurospora Varkud satellite ribozyme |
| Q37402371 | Recognition modes of RNA tetraloops and tetraloop-like motifs by RNA-binding proteins |
| Q28593075 | Reconstruction of ancestral RNA sequences under multiple structural constraints |
| Q52874416 | Reentrant melting of RNA with quenched sequence randomness. |
| Q34786169 | Regulation of innate immunity through RNA structure and the protein kinase PKR. |
| Q38793689 | Regulatory effects of cotranscriptional RNA structure formation and transitions |
| Q35011079 | Removal of covalent heterogeneity reveals simple folding behavior for P4-P6 RNA. |
| Q35567989 | Ribonucleic acid (RNA) biosynthesis in human cancer |
| Q34775640 | Roles of DEAD-box proteins in RNA and RNP Folding |
| Q36987237 | SHAPE analysis of long-range interactions reveals extensive and thermodynamically preferred misfolding in a fragile group I intron RNA. |
| Q34138663 | SHAPE-directed RNA secondary structure prediction |
| Q41504071 | Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension |
| Q45739309 | Salt contribution to the flexibility of single-stranded nucleic acid offinite length |
| Q24650345 | Salt dependence of nucleic acid hairpin stability |
| Q33568362 | Salt-dependent folding energy landscape of RNA three-way junction |
| Q36443259 | Secondary structure encodes a cooperative tertiary folding funnel in the Azoarcus ribozyme |
| Q64386799 | Secondary structure formation of homopolymeric single-stranded nucleic acids including force and loop entropy: implications for DNA hybridization |
| Q33363120 | Self containment, a property of modular RNA structures, distinguishes microRNAs |
| Q35012325 | Self-induced structural switches in RNA. |
| Q92376848 | Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation |
| Q46458319 | Sequence-dependent structural dynamics of primate adenosine-to-inosine editing substrates |
| Q34324884 | Simultaneous prediction of RNA secondary structure and helix coaxial stacking |
| Q34045662 | Single-Molecule FRET Reveals Three Conformations for the TLS Domain of Brome Mosaic Virus Genome |
| Q46539307 | Single-Molecule Fluorescence Reveals Commonalities and Distinctions among Natural and in Vitro-Selected RNA Tertiary Motifs in a Multistep Folding Pathway. |
| Q36148350 | Single-molecule mechanical unfolding and folding of a pseudoknot in human telomerase RNA. |
| Q35734390 | Single-molecule studies highlight conformational heterogeneity in the early folding steps of a large ribozyme |
| Q38204154 | Single-molecule studies of riboswitch folding. |
| Q26750652 | Sparse RNA folding revisited: space-efficient minimum free energy structure prediction |
| Q43206867 | Specific metal-ion binding sites in a model of the P4-P6 triple-helical domain of a group I intron |
| Q27639511 | Specificity of RNA-RNA helix recognition |
| Q42081060 | Square-shaped RNA particles from different RNA folds. |
| Q25255913 | Stabilities of HIV-1 DIS type RNA loop-loop interactions in vitro and in vivo |
| Q34248101 | Stable stem enabled Shannon entropies distinguish non-coding RNAs from random backgrounds |
| Q53703020 | Statistical mechanics of RNA folding: a lattice approach. |
| Q47433739 | Statistical mechanics of RNA folding: importance of alphabet size |
| Q46025063 | Statistical mechanics of secondary structures formed by random RNA sequences. |
| Q73126222 | Statistical physics of RNA folding |
| Q46008381 | Steepest descent calculation of RNA pseudoknots. |
| Q43033693 | Stepwise conversion of a mesophilic to a thermophilic ribozyme |
| Q90436716 | Structural Biology of the Enterovirus Replication-Linked 5'-Cloverleaf RNA and Associated Virus Proteins |
| Q52751411 | Structural characterization of the internal transcribed spacer 2 (ITS2) of the ribosomal DNA (rDNA) cluster in Calyptratae (Diptera: Schizophora) and its implications for molecular phylogenetic analyses. |
| Q41790314 | Structural parameters affecting the kinetics of RNA hairpin formation |
| Q41897563 | Structural signatures of antibiotic binding sites on the ribosome |
| Q33900482 | Structural specificity conferred by a group I RNA peripheral element |
| Q46146519 | Structural studies of a trinucleotide repeat sequence using 2-aminopurine. |
| Q24649340 | Structure-guided engineering of the regioselectivity of RNA ligase ribozymes |
| Q73808640 | Structure-property correlation and prediction of melting temperature of RNA duplexes |
| Q50149408 | StructureFold2: Bringing chemical probing data into the computational fold of RNA structural analysis. |
| Q59349219 | Synergistic SHAPE/Single-Molecule Deconvolution of RNA Conformation under Physiological Conditions |
| Q51914649 | Systematic field theory of the RNA glass transition. |
| Q42273465 | TT2NE: a novel algorithm to predict RNA secondary structures with pseudoknots |
| Q37806521 | Taming free energy landscapes with RNA chaperones |
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