Citation Impact
Citing Papers
On the relationship between folding and chemical landscapes in enzyme catalysis
2008 StandoutNobel
Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation
2014 StandoutScienceNobel
DNA capture by a CRISPR-Cas9–guided adenine base editor
2020 StandoutScienceNobel
Structures of a CRISPR-Cas9 R-loop complex primed for DNA cleavage
2016 StandoutScienceNobel
Ion motions in molecular dynamics simulations on DNA
2004
Cas9–crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria
2012 Standout
Structures of the RNA-guided surveillance complex from a bacterial immune system
2011 StandoutNatureNobel
Endonuclease V cleaves at inosines in RNA
2013
Molecular Dynamics Simulations of the 136 Unique Tetranucleotide Sequences of DNA Oligonucleotides. I. Research Design and Results on d(CpG) Steps
2004
Magnesium-cationic Dummy Atom Molecules Enhance Representation of DNA Polymerase β in Molecular Dynamics Simulations: Improved Accuracy in Studies of Structural Features and Mutational Effects
2006 StandoutNobel
Tuning in to Interference: R-Loops and Cascade Complexes in CRISPR Immunity
2012
Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage
2016 StandoutNature
Molecular dynamics simulations and their application to four-stranded DNA
2007
QM/MM Methods for Biomolecular Systems
2009 Standout
Evolution of CRISPR RNA recognition and processing by Cas6 endonucleases
2013 StandoutNobel
Non-specific protein–DNA interactions control I-CreI target binding and cleavage
2012
Long-Residency Hydration, Cation Binding, and Dynamics of Loop E/Helix IV rRNA-L25 Protein Complex
2004
Molecular Dynamics Simulations of Guanine Quadruplex Loops: Advances and Force Field Limitations
2004
Triplex-forming oligonucleotide target sequences in the human genome
2004
Refinement of the AMBER Force Field for Nucleic Acids: Improving the Description of α/γ Conformers
2007 Standout
Elbow Flexibility of the kt38 RNA Kink-Turn Motif Investigated by Free-Energy Molecular Dynamics Simulations
2009
Nature of Base Stacking: Reference Quantum‐Chemical Stacking Energies in Ten Unique B‐DNA Base‐Pair Steps
2006
DNA Targeting by a Minimal CRISPR RNA-Guided Cascade
2016 StandoutNobel
Programmable base editing of A•T to G•C in genomic DNA without DNA cleavage
2017 StandoutNature
Exploring the role of large conformational changes in the fidelity of DNA polymerase β
2007 StandoutNobel
Molecular dynamics simulations of RNA: An in silico single molecule approach
2006
The CRISPR-associated DNA-cleaving enzyme Cpf1 also processes precursor CRISPR RNA
2016 StandoutNatureNobel
RNA and DNA Targeting by a Reconstituted Thermus thermophilus Type III-A CRISPR-Cas System
2017 StandoutNobel
Massively parallel determination and modeling of endonuclease substrate specificity
2014 StandoutNobel
A QM/MM Study of Cisplatin–DNA Oligonucleotides: From Simple Models to Realistic Systems
2006
Structure of the Base of the L7/L12 Stalk of the Haloarcula marismortui Large Ribosomal Subunit: Analysis of L11 Movements
2007 StandoutNobel
Ribosomal RNA Kink-turn Motif—A Flexible Molecular Hinge
2004
Molecular dynamics simulations of sarcin-ricin rRNA motif
2006
Prechemistry versus preorganization in DNA replication fidelity
2011 StandoutNobel
RNA Kink-Turns as Molecular Elbows: Hydration, Cation Binding, and Large-Scale Dynamics
2006
RNA-guided genetic silencing systems in bacteria and archaea
2012 StandoutNatureNobel
Nucleic acid solvation: from outside to insight
2007
Dynamics of the base of ribosomal A-site finger revealed by molecular dynamics simulations and Cryo-EM
2009 StandoutNobel
Mechanism of Foreign DNA Selection in a Bacterial Adaptive Immune System
2012 StandoutNobel
Structural basis for CRISPR RNA-guided DNA recognition by Cascade
2011 StandoutNobel
Recent advances in small organic molecules as DNA intercalating agents: Synthesis, activity, and modeling
2014
Biology and Applications of CRISPR Systems: Harnessing Nature’s Toolbox for Genome Engineering
2016 StandoutNobel
A computational approach for predicting off-target toxicity of antiviral ribonucleoside analogues to mitochondrial RNA polymerase
2018 StandoutNobel
Structure and Activity of the RNA-Targeting Type III-B CRISPR-Cas Complex of Thermus thermophilus
2013 StandoutNobel
The Biology of CRISPR-Cas: Backward and Forward
2018 StandoutNobel
Evolution and Functions of Long Noncoding RNAs
2009 Standout
Why nature really chose phosphate
2013 StandoutNobel
Conformations of Flanking Bases in HIV-1 RNA DIS Kissing Complexes Studied by Molecular Dynamics
2007
Mutations in Cas9 Enhance the Rate of Acquisition of Viral Spacer Sequences during the CRISPR-Cas Immune Response
2016 StandoutNobel
Molecular Dynamics Simulations of the 136 Unique Tetranucleotide Sequences of DNA Oligonucleotides. II: Sequence Context Effects on the Dynamical Structures of the 10 Unique Dinucleotide Steps
2005
Are the Hydrogen Bonds of RNA (A⋅U) Stronger Than those of DNA (A⋅T)? A Quantum Mechanics Study
2005
Quadruplex DNA: sequence, topology and structure
2006 Standout
Structural Dynamics of Precursor and Product of the RNA Enzyme from the Hepatitis Delta Virus as Revealed by Molecular Dynamics Simulations
2005
Elastic properties of ribosomal RNA building blocks: molecular dynamics of the GTPase-associated center rRNA
2007
RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions
2011 StandoutNobel
Anticancer Activity Expressed by a Library of 2,9-Diazaperopyrenium Dications
2015 StandoutNobel
Quantitative exploration of the molecular origin of the activation of GTPase
2013 StandoutNobel
Anthramycin−DNA Binding Explored by Molecular Simulations
2006
Clustering Molecular Dynamics Trajectories: 1. Characterizing the Performance of Different Clustering Algorithms
2007
Converting structural information into an allosteric-energy-based picture for elongation factor Tu activation by the ribosome
2011 StandoutNobel
Structure, dynamics, and elasticity of free 16s rRNA helix 44 studied by molecular dynamics simulations
2006
Water as an Active Constituent in Cell Biology
2007 Standout
Molecular Dynamics and Free Energy Study of the Conformational Equilibria in the UUUU RNA Hairpin
2007
Structures of the CRISPR-Cmr complex reveal mode of RNA target positioning
2015 StandoutScienceNobel
Dynamics of B-DNA on the Microsecond Time Scale
2007
Ion-dependent protein–surface interactions from intrinsic solvent response
2021 StandoutNobel
Quantifying Free Energy Profiles of Proton Transfer Reactions in Solution and Proteins by Using a Diabatic FDFT Mapping
2008 StandoutNobel
A protocol for preparing explicitly solvated systems for stable molecular dynamics simulations
2020
CasA mediates Cas3-catalyzed target degradation during CRISPR RNA-guided interference
2014 StandoutNobel
Reprogramming homing endonuclease specificity through computational design and directed evolution
2013 StandoutNobel
Modeling and design by hierarchical natural moves
2012 StandoutNobel
Exploring the Essential Dynamics of B-DNA
2005
Addressing Open Questions about Phosphate Hydrolysis Pathways by Careful Free Energy Mapping
2012 StandoutNobel
New tricks for old dogs: improving the accuracy of biomolecular force fields by pair-specific corrections to non-bonded interactions
2018
Computational design of mechanically coupled axle-rotor protein assemblies
2022 StandoutScienceNobel
Progress in Ab Initio QM/MM Free-Energy Simulations of Electrostatic Energies in Proteins: Accelerated QM/MM Studies of pKa, Redox Reactions and Solvation Free Energies
2008 StandoutNobel
RNA Scanning of a Molecular Machine with a Built-in Ruler
2016 StandoutNobel
Quantifying the Mechanism of Phosphate Monoester Hydrolysis in Aqueous Solution by Evaluating the Relevant Ab Initio QM/MM Free-Energy Surfaces
2013 StandoutNobel
Structural bioinformatics of DNA: a web-based tool for the analysis of molecular dynamics results and structure prediction
2006
Refinement of the Cornell et al. Nucleic Acids Force Field Based on Reference Quantum Chemical Calculations of Glycosidic Torsion Profiles
2011
Substrate Recognition and Specificity of Double-Stranded RNA Binding Proteins
2014
Nature of Minor-Groove Binders−DNA Complexes in the Gas Phase
2005
G-Quadruplexes Can Maintain Their Structure in the Gas Phase
2006
Simulating the electrostatic guidance of the vectorial translocations in hexameric helicases and translocases
2009 StandoutNobel
Simulating the Effect of DNA Polymerase Mutations on Transition-State Energetics and Fidelity: Evaluating Amino Acid Group Contribution and Allosteric Coupling for Ionized Residues in Human Pol β
2006 StandoutNobel
Computer simulations explain mutation-induced effects on the DNA editing by adenine base editors
2020
Works of Agnes Noy being referenced
Theoretical methods for the simulation of nucleic acids
2003
Relative Flexibility of DNA and RNA: a Molecular Dynamics Study
2004
Recent advances in the study of nucleic acid flexibility by molecular dynamics
2008
Data Mining of Molecular Dynamics Trajectories of Nucleic Acids
2006
The relative flexibility of B-DNA and A-RNA duplexes: database analysis
2004
Theoretical study of large conformational transitions in DNA: the B↔A conformational change in water and ethanol/water
2007
Parmbsc1: a refined force field for DNA simulations
2015
Theoretical Methods for the Simulation of Nucleic Acids
2004
Structure, Recognition Properties, and Flexibility of the DNA·RNA Hybrid
2005