Wilma K. Olson Department of Chemistry & Chemical Biology and BioMaPS Institute for Quantitative Biology Rutgers - The State University of New Jersey Biography Publications Institution JoVE Articles Wilma K. Olson has not added a biography. If you are Wilma K. Olson and would like to personalize this page please email our Author Liaison for assistance. Publications Can Nucleosomal DNA Be Described by an Elastic Model?: Comment on "Sequence-dependent Collective Properties of DNAs and Their Role in Biological Systems" by Pasquale De Santis and Anita Scipioni Physics of Life Reviews. Mar, 2013 | Pubmed ID: 23587120 Structural Insights into the Role of Architectural Proteins in DNA Looping Deduced from Computer Simulations Biochemical Society Transactions. Apr, 2013 | Pubmed ID: 23514154 Interplay of Protein and DNA Structure Revealed in Simulations of the Lac Operon PloS One. 2013 | Pubmed ID: 23457581 Insights into Gene Expression and Packaging from Computer Simulations Biophysical Reviews. Sep, 2012 | Pubmed ID: 23139731 Computational Opportunities for Remote Collaboration and Capacity Building Afforded by Web 2.0 and Cloud Computing Biophysical Reviews. Sep, 2012 | Pubmed ID: 23066431 Understanding the Sequence Preference of Recurrent RNA Building Blocks Using Quantum Chemistry: The Intrastrand RNA Dinucleotide Platform Journal of Chemical Theory and Computation. Jan, 2012 | Pubmed ID: 22712001 Internucleosomal Interactions Mediated by Histone Tails Allow Distant Communication in Chromatin The Journal of Biological Chemistry. Jun, 2012 | Pubmed ID: 22518845 Working the Kinks out of Nucleosomal DNA Current Opinion in Structural Biology. Jun, 2011 | Pubmed ID: 21482100 Understanding Apparent DNA Flexibility Enhancement by HU and HMGB Architectural Proteins Journal of Molecular Biology. Jun, 2011 | Pubmed ID: 21459097 Nucleic-acid Structural Deformability Deduced from Anisotropic Displacement Parameters Biopolymers. Apr, 2011 | Pubmed ID: 21280021 Long-range Effects of Histone Point Mutations on DNA Remodeling Revealed from Computational Analyses of SIN-mutant Nucleosome Structures Nucleic Acids Research. Nov, 2010 | Pubmed ID: 20647418 DNA Architecture, Deformability, and Nucleosome Positioning Journal of Biomolecular Structure & Dynamics. Jun, 2010 | Pubmed ID: 20232929 The RNA Backbone Plays a Crucial Role in Mediating the Intrinsic Stability of the GpU Dinucleotide Platform and the GpUpA/GpA Miniduplex Nucleic Acids Research. Aug, 2010 | Pubmed ID: 20223772 How Stiff is DNA? Physical Chemistry Chemical Physics : PCCP. Feb, 2010 | Pubmed ID: 20119618 3DNALandscapes: a Database for Exploring the Conformational Features of DNA Nucleic Acids Research. Jan, 2010 | Pubmed ID: 19906722 Properties of the Nucleic-acid Bases in Free and Watson-Crick Hydrogen-bonded States: Computational Insights into the Sequence-dependent Features of Double-helical DNA Biophysical Reviews. Mar, 2009 | Pubmed ID: 21218180 Two Perspectives on the Twist of DNA The Journal of Chemical Physics. Dec, 2009 | Pubmed ID: 20059113 Web 3DNA--a Web Server for the Analysis, Reconstruction, and Visualization of Three-dimensional Nucleic-acid Structures Nucleic Acids Research. Jul, 2009 | Pubmed ID: 19474339 DNA Sequence-directed Organization of Chromatin: Structure-based Computational Analysis of Nucleosome-binding Sequences Biophysical Journal. Mar, 2009 | Pubmed ID: 19289051 New Information Content in RNA Base Pairing Deduced from Quantitative Analysis of High-resolution Structures Methods (San Diego, Calif.). Mar, 2009 | Pubmed ID: 19150407 BPS: a Database of RNA Base-pair Structures Nucleic Acids Research. Jan, 2009 | Pubmed ID: 18845572 Structure, Dynamics, and Branch Migration of a DNA Holliday Junction: a Single-molecule Fluorescence and Modeling Study Biophysical Journal. Nov, 2008 | Pubmed ID: 18658216 3DNA: a Versatile, Integrated Software System for the Analysis, Rebuilding and Visualization of Three-dimensional Nucleic-acid Structures Nature Protocols. 2008 | Pubmed ID: 18600227 Effects of the Nucleoid Protein HU on the Structure, Flexibility, and Ring-closure Properties of DNA Deduced from Monte Carlo Simulations Journal of Molecular Biology. Oct, 2008 | Pubmed ID: 18586040 NuScore: a Web-interface for Nucleosome Positioning Predictions Bioinformatics (Oxford, England). Jun, 2008 | Pubmed ID: 18445607 Feature Extraction Using Molecular Planes for Fuzzy Relational Clustering of a Flexible Dopamine Reuptake Inhibitor Journal of Chemical Information and Modeling. Nov-Dec, 2007 | Pubmed ID: 17967005 A Novel Roll-and-slide Mechanism of DNA Folding in Chromatin: Implications for Nucleosome Positioning Journal of Molecular Biology. Aug, 2007 | Pubmed ID: 17585938 PREDICTED EFFECTS OF LOCAL CONFORMATIONAL COUPLING AND EXTERNAL RESTRAINTS ON THE TORSIONAL PROPERTIES OF SINGLE DNA MOLECULES Multiscale Modeling & Simulation : a SIAM Interdisciplinary Journal. 2006 | Pubmed ID: 19081755 Modeling the Lac Repressor-operator Assembly: the Influence of DNA Looping on Lac Repressor Conformation Proceedings of the National Academy of Sciences of the United States of America. Jun, 2006 | Pubmed ID: 16785444 Target-site Preferences of Sleeping Beauty Transposons Journal of Molecular Biology. Feb, 2005 | Pubmed ID: 15663935 Knowledge-based Elastic Potentials for Docking Drugs or Proteins with Nucleic Acids Biophysical Journal. Feb, 2005 | Pubmed ID: 15501936 Implications of the Dependence of the Elastic Properties of DNA on Nucleotide Sequence Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences. Jul, 2004 | Pubmed ID: 15306458 3DNA: a Software Package for the Analysis, Rebuilding and Visualization of Three-dimensional Nucleic Acid Structures Nucleic Acids Research. Sep, 2003 | Pubmed ID: 12930962 Accurate Representation of B-DNA Double Helical Structure with Implicit Solvent and Counterions Biophysical Journal. Jul, 2002 | Pubmed ID: 12080128 Sequence-dependent Motions of DNA: a Normal Mode Analysis at the Base-pair Level Biophysical Journal. Jul, 2002 | Pubmed ID: 12080098 Bending of DNA by Asymmetric Charge Neutralization: All-atom Energy Simulations Journal of the American Chemical Society. May, 2002 | Pubmed ID: 11971734 Analyzing and Building Nucleic Acid Structures with 3DNA Andrew V. Colasanti1, Xiang-Jun Lu2, Wilma K. Olson1 1Department of Chemistry & Chemical Biology and BioMaPS Institute for Quantitative Biology, Rutgers - The State University of New Jersey, 2Department of Biological Sciences, Columbia University JoVE 4401 Biology
Analyzing and Building Nucleic Acid Structures with 3DNA Andrew V. Colasanti1, Xiang-Jun Lu2, Wilma K. Olson1 1Department of Chemistry & Chemical Biology and BioMaPS Institute for Quantitative Biology, Rutgers - The State University of New Jersey, 2Department of Biological Sciences, Columbia University JoVE 4401 Biology