| scholarly article | Q13442814 |
| P50 | author | Nikolay V. Dokholyan | Q38319632 |
| Feng Ding | Q38360307 | ||
| P2093 | author name string | Shantanu Sharma | |
| P2860 | cites work | Automated de novo prediction of native-like RNA tertiary structures | Q24673712 |
| The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data | Q28271703 | ||
| Emergence of protein fold families through rational design | Q33250082 | ||
| Ab initio RNA folding by discrete molecular dynamics: from structure prediction to folding mechanisms | Q36666278 | ||
| Bridging the gap in RNA structure prediction. | Q36769213 | ||
| RNA SHAPE chemistry reveals nonhierarchical interactions dominate equilibrium structural transitions in tRNA(Asp) transcripts | Q46409126 | ||
| Discrete molecular dynamics studies of the folding of a protein-like model. | Q52227357 | ||
| iFold: a platform for interactive folding simulations of proteins | Q57829309 | ||
| P433 | issue | 17 | |
| P407 | language of work or name | English | Q1860 |
| P304 | page(s) | 1951-2 | |
| P577 | publication date | 2008-09-01 | |
| P1433 | published in | Bioinformatics | Q4914910 |
| P1476 | title | iFoldRNA: three-dimensional RNA structure prediction and folding | |
| P478 | volume | 24 |
| Q92875669 | 3dRNA v2.0: An Updated Web Server for RNA 3D Structure Prediction |
| Q35656687 | 3dRNAscore: a distance and torsion angle dependent evaluation function of 3D RNA structures |
| Q35628460 | A Method to Predict the 3D Structure of an RNA Scaffold |
| Q42739469 | A boost for the emerging field of RNA nanotechnology |
| Q51038351 | A coarse-grained model with implicit salt for RNAs: predicting 3D structure, stability and salt effect. |
| Q40405643 | A comparative taxonomy of parallel algorithms for RNA secondary structure prediction |
| Q28743534 | A conditional random fields method for RNA sequence-structure relationship modeling and conformation sampling |
| Q49615824 | A nucleobase-centered coarse-grained representation for structure prediction of RNA motifs. |
| Q41051818 | Accurate prediction of RNA nucleotide interactions with backbone k-tree model |
| Q45783105 | All-atom knowledge-based potential for RNA structure prediction and assessment |
| Q92601052 | Amyloid Self-Assembly of hIAPP8-20 via the Accumulation of Helical Oligomers, α-Helix to β-Sheet Transition, and Formation of β-Barrel Intermediates |
| Q29465540 | Arid5a regulates naive CD4+ T cell fate through selective stabilization of Stat3 mRNA. |
| Q33789129 | Atomic accuracy in predicting and designing noncanonical RNA structure |
| Q24622388 | Automated 3D structure composition for large RNAs |
| Q57387687 | Automated RNA 3D Structure Prediction with RNAComposer |
| Q35783573 | Automated RNA tertiary structure prediction from secondary structure and low-resolution restraints |
| Q36316650 | Automated and fast building of three-dimensional RNA structures |
| Q47115115 | Base pair probability estimates improve the prediction accuracy of RNA non-canonical base pairs. |
| Q37744021 | Capturing RNA Folding Free Energy with Coarse-Grained Molecular Dynamics Simulations |
| Q91704782 | Chemical shift-based methods in NMR structure determination |
| 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 |
| Q41329375 | Coarse-grained prediction of RNA loop structures. |
| Q30893791 | Computational analysis of RNA structures with chemical probing data |
| Q37852524 | Computational approaches to 3D modeling of RNA. |
| Q37868135 | Computational approaches to RNA structure prediction, analysis, and design |
| Q87532837 | De novo tertiary structure prediction using RNA123--benchmarking and application to Macugen |
| Q34231842 | Describing the structural robustness landscape of bacterial small RNAs. |
| Q30524306 | Determining RNA three-dimensional structures using low-resolution data. |
| Q34198733 | Discrete RNA libraries from pseudo-torsional space |
| Q39611535 | Duck RIG-I CARD Domain Induces the Chicken IFN-β by Activating NF-κB. |
| Q47565164 | F-RAG: Generating Atomic Coordinates from RNA Graphs by Fragment Assembly |
| 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 |
| Q37660036 | Graph-based sampling for approximating global helical topologies of RNA. |
| Q28293533 | Hfq binding changes the structure of Escherichia coli small noncoding RNAs OxyS and RprA, which are involved in the riboregulation of rpoS |
| Q84959270 | HiRE-RNA: A High Resolution Coarse-Grained Energy Model for RNA |
| Q47234232 | Hierarchical Assembly of RNA Three-Dimensional Structures Based on Loop Templates. |
| Q35775755 | Improved prediction of RNA tertiary structure with insights into native state dynamics |
| Q37509434 | Intron retention resulting from a silent mutation in the VWF gene that structurally influences the 5' splice site |
| Q37460103 | Knowledge-based instantiation of full atomic detail into coarse-grain RNA 3D structural models |
| Q38148965 | Large-scale study of long non-coding RNA functions based on structure and expression features. |
| Q64926823 | Limits in accuracy and a strategy of RNA structure prediction using experimental information. |
| Q35017843 | ModeRNA: a tool for comparative modeling of RNA 3D structure |
| Q33567541 | Modeling RNA loops using sequence homology and geometric constraints |
| Q38811101 | Modeling RNA topological structures using small angle X-ray scattering |
| Q34271167 | Modeling nucleic acids |
| Q37477496 | Molecular dynamics simulations and coupled nucleotide substitution experiments indicate the nature of A⋅A base pairing and a putative structure of the coralyne-induced homo-adenine duplex |
| Q43152046 | Native-like RNA tertiary structures using a sequence-encoded cleavage agent and refinement by discrete molecular dynamics |
| Q33913266 | On the significance of an RNA tertiary structure prediction |
| Q40950675 | Optimization of RNA 3D structure prediction using evolutionary restraints of nucleotide-nucleotide interactions from direct coupling analysis. |
| Q38584091 | Physics-based RNA structure prediction |
| Q42712420 | Physics-based de novo prediction of RNA 3D structures. |
| Q49289634 | Predicting RNA Structure with Vfold. |
| Q31131985 | Predicting helical topologies in RNA junctions as tree graphs |
| Q38639057 | Progress and Current Challenges in Modeling Large RNAs |
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| Q35203415 | Protein-binding RNA aptamers affect molecular interactions distantly from their binding sites |
| Q64064419 | QRNAS: software tool for refinement of nucleic acid structures |
| Q30390338 | Quantifying the relationship between sequence and three-dimensional structure conservation in RNA. |
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| Q36376536 | RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. |
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| Q91678594 | RNA-Puzzles toolkit: a computational resource of RNA 3D structure benchmark datasets, structure manipulation, and evaluation tools |
| Q59807840 | RNA3DCNN: Local and global quality assessments of RNA 3D structures using 3D deep convolutional neural networks |
| Q39888281 | RNAComposer and RNA 3D structure prediction for nanotechnology |
| Q36963223 | RNAlyzer--novel approach for quality analysis of RNA structural models |
| Q34520292 | RNAmap2D - calculation, visualization and analysis of contact and distance maps for RNA and protein-RNA complex structures. |
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| Q60370568 | RNA–DNA fibers and polygons with controlled immunorecognition activate RNAi, FRET and transcriptional regulation of NF-κB in human cells |
| Q36474429 | Regulatory RNAs in brain function and disorders |
| Q35230287 | Ribonomic approaches to study the RNA-binding proteome. |
| Q36782085 | Rig-I regulates NF-κB activity through binding to Nf-κb1 3'-UTR mRNA |
| Q36448795 | Rsite2: an efficient computational method to predict the functional sites of noncoding RNAs |
| Q30670593 | Screening and Identifying a Novel ssDNA Aptamer against Alpha-fetoprotein Using CE-SELEX. |
| Q42921968 | Sequence-structure relationships in RNA loops: establishing the basis for loop homology modeling |
| Q34505971 | SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction |
| Q37182037 | SimRNAweb: a web server for RNA 3D structure modeling with optional restraints |
| Q26829982 | Small molecule compounds targeting miRNAs for cancer therapy |
| Q56287389 | Structure Prediction for Alternatively Spliced Proteins |
| Q36096150 | Structure Prediction of RNA Loops with a Probabilistic Approach |
| Q26775139 | Structure Prediction: New Insights into Decrypting Long Noncoding RNAs |
| Q49519923 | Structure modeling of RNA using sparse NMR constraints. |
| Q36280635 | The low-resolution solution structure of Vibrio cholerae Hfq in complex with Qrr1 sRNA |
| Q41994677 | Towards 3D structure prediction of large RNA molecules: an integer programming framework to insert local 3D motifs in RNA secondary structure |
| Q37919342 | Understanding the transcriptome through RNA structure |
| Q47863359 | Using 3dRNA for RNA 3-D Structure Prediction and Evaluation. |
| Q49402141 | Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools. |
| Q35249784 | Vfold: a web server for RNA structure and folding thermodynamics prediction |
| Q30571375 | Visualizing the ai5γ group IIB intron |
| Q34912135 | WebRASP: a server for computing energy scores to assess the accuracy and stability of RNA 3D structures |
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