Dr Alberto Perez
Current affiliation: Stony Brook University
Subject: Health Sciences
Primary location: United States
Theoretical methods for the simulation of nucleic acids
Published in:Chemical Society Reviews
Publication date:2003-01-01
Relative Flexibility of DNA and RNA: a Molecular Dynamics Study
Published in:Journal of Molecular Biology
Publication date:2004-10-01
8-Amino guanine accelerates tetramolecular G-quadruplex formation
Published in:Chemical Communications
Publication date:2008-01-01
A consensus view of protein dynamics
Published in:Proceedings of the National Academy of Sciences
Publication date:2007-01-10
Parmbsc1: a refined force field for DNA simulations
Published in:Nature Methods
Publication date:2015-11-16
Exploring Early Stages of the Chemical Unfolding of Proteins at the Proteome Scale
Published in:PLoS Computational Biology
Publication date:2013-12-12
MoDEL (Molecular Dynamics Extended Library): A Database of Atomistic Molecular Dynamics Trajectories
Published in:Structure
Publication date:2010-11-01
Advances in free-energy-based simulations of protein folding and ligand binding
Published in:Current Opinion in Structural Biology
Publication date:2016-02-01
Toward a Consensus View of Duplex RNA Flexibility
Published in:Biophysical Journal
Publication date:2010-09-01
Real-Time Atomistic Description of DNA Unfolding
Published in:Angewandte Chemie International Edition
Publication date:2010-05-17
Dynamics of B-DNA on the Microsecond Time Scale
Published in:Journal of the American Chemical Society
Publication date:2007-11-01
Structure, Recognition Properties, and Flexibility of the DNA·RNA Hybrid
Published in:Journal of the American Chemical Society
Publication date:2005-04-01
Determining promoter location based on DNA structure first-principles calculations
Published in:Genome Biology
Publication date:2007-01-01
Recent advances in the study of nucleic acid flexibility by molecular dynamics
Published in:Current Opinion in Structural Biology
Publication date:2008-04-01
Frontiers in Molecular Dynamics Simulations of DNA
Published in:Accounts of Chemical Research
Publication date:2012-02-21
Structure, Stiffness and Substates of the Dickerson-Drew Dodecamer
Published in:Journal of Chemical Theory and Computation
Publication date:2013-01-08
Data Mining of Molecular Dynamic Trajectories of Nucleic Acids
Published in:Computational Studies of RNA and DNA
Publication date:2006-01-01
Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast
Published in:BMC Genomics
Publication date:2011-01-01
Impact of Methylation on the Physical Properties of DNA
Published in:Biophysical Journal
Publication date:2012-05-01
Refinement of the AMBER Force Field for Nucleic Acids: Improving the Description of α/γ Conformers
Published in:Biophysical Journal
Publication date:2007-06-01
Data Mining of Molecular Dynamics Trajectories of Nucleic Acids
Published in:Journal of Biomolecular Structure and Dynamics
Publication date:2006-02-01
Essential Dynamics: A Tool for Efficient Trajectory Compression and Management
Published in:Journal of Chemical Theory and Computation
Publication date:2006-03-01
Exploring the Essential Dynamics of B-DNA
Published in:Journal of Chemical Theory and Computation
Publication date:2005-09-01
Are the Hydrogen Bonds of RNA (A⋅U) Stronger Than those of DNA (A⋅T)? A Quantum Mechanics Study
Published in:Chemistry - A European Journal
Publication date:2005-08-19
Computing the Relative Stabilities and the Per-Residue Components in Protein Conformational Changes
Published in:Structure
Publication date:2014-01-01
Assessment of protein structure refinement in CASP9
Published in:Proteins Structure Function and Bioinformatics
Publication date:2011-01-01
Extracting representative structures from protein conformational ensembles
Published in:Proteins Structure Function and Bioinformatics
Publication date:2014-07-05Choosing Accurate Structures from Protein Ensembles
Constraint methods that accelerate free-energy simulations of biomolecules
Published in:The Journal of Chemical Physics
Publication date:2015-12-28
FlexE: Using Elastic Network Models to Compare Models of Protein Structure
Published in:Journal of Chemical Theory and Computation
Publication date:2012-10-09
Grid-Based Backbone Correction to the ff12SB Protein Force Field for Implicit-Solvent Simulations
Published in:Journal of Chemical Theory and Computation
Publication date:2015-10-13
Determining protein structures by combining semireliable data with atomistic physical models by Bayesian inference
Published in:Proceedings of the National Academy of Sciences
Publication date:2015-05-18
Accelerating molecular simulations of proteins using Bayesian inference on weak information
Published in:Proceedings of the National Academy of Sciences
Publication date:2015-09-08
Refinement of Generalized Born Implicit Solvation Parameters for Nucleic Acids and Their Complexes with Proteins
Published in:Journal of Chemical Theory and Computation
Publication date:2015-08-11
The lipid raft proteome ofBorrelia burgdorferi
Published in:PROTEOMICS
Publication date:2015-09-28
ABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNA
Published in:Nucleic Acids Research
Publication date:2014-09-26