Related references
Note: Only part of the references are listed.Diameter Dependent Melting and Softening of dsDNA Under Cylindrical Confinement
Khadka B. Chhetri et al.
FRONTIERS IN CHEMISTRY (2022)
Nanoscale structures and mechanics of peptide nucleic acids
Khadka B. Chhetri et al.
NANOSCALE (2022)
Probing the microscopic structure and flexibility of oxidized DNA by molecular simulations
K. B. Chhetri et al.
INDIAN JOURNAL OF PHYSICS (2022)
Protamine Binding Site on DNA: Molecular Dynamics Simulations and Free Energy Calculations with Full Atomistic Details
Arnab Mukherjee et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2021)
Protamine-Controlled Reversible DNA Packaging: A Molecular Glue
Arnab Mukherjee et al.
ACS NANO (2021)
Amino Acid Sequence of Oligopeptide Causes Marked Difference in DNA Compaction and Transcription
Anatoly Zinchenko et al.
BIOPHYSICAL JOURNAL (2019)
End-Point Binding Free Energy Calculation with MM/PBSA and MM/GBSA: Strategies and Applications in Drug Design
Ercheng Wang et al.
CHEMICAL REVIEWS (2019)
New insights into protein-DNA binding specificity from hydrogen bond based comparative study
Maoxuan Lin et al.
NUCLEIC ACIDS RESEARCH (2019)
Sperm nuclear protamines: A checkpoint to control sperm chromatin quality
Klaus Steger et al.
ANATOMIA HISTOLOGIA EMBRYOLOGIA (2018)
Sperm DNA and detection of DNA fragmentations in sperm
Niyazi Kucuk
TURKISH JOURNAL OF UROLOGY (2018)
Polyarginine Interacts More Strongly and Cooperatively than Polylysine with Phospholipid Bilayers
Aaron D. Robison et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2016)
Atomistic Simulation of Stacked Nucleosome Core Particles: Tail Bridging, the H4 Tail, and Effect of Hydrophobic Forces
Suman Saurabh et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2016)
Comprehensive analysis of histone post-translational modifications in mouse and human male germ cells
Lacey J. Luense et al.
EPIGENETICS & CHROMATIN (2016)
Molecular Mechanism and Energy Basis of Conformational Diversity of Antibody SPE7 Revealed by Molecular Dynamics Simulation and Principal Component Analysis
Jianzhong Chen et al.
SCIENTIFIC REPORTS (2016)
DNA Elasticity from Short DNA to Nucleosomal DNA
Ashok Garai et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2015)
Chromatin dynamics during spermiogenesis
Christina Rathke et al.
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS (2014)
A Comparison of DNA Compaction by Arginine and Lysine Peptides: A Physical Basis for Arginine Rich Protarnines
Jason DeRouchey et al.
BIOCHEMISTRY (2013)
Using collective variables to drive molecular dynamics simulations
Giacomo Fiorin et al.
MOLECULAR PHYSICS (2013)
Revised AMBER Parameters for Bioorganic Phosphates
T. Steinbrecher et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2012)
MMPBSA.py: An Efficient Program for End-State Free Energy Calculations
Bill R. Miller et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2012)
DNA Compaction by a Dendrimer
Bidisha Nandy et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2011)
Definition of the hydrogen bond (IUPAC Recommendations 2011)
Elangannan Arunan et al.
PURE AND APPLIED CHEMISTRY (2011)
Origins of Specificity in Protein-DNA Recognition
Remo Rohs et al.
ANNUAL REVIEW OF BIOCHEMISTRY, VOL 79 (2010)
Two-Phase Thermodynamic Model for Efficient and Accurate Absolute Entropy of Water from Molecular Dynamics Simulations
Shiang-Tai Lin et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2010)
Complexation of siRNA with Dendrimer: A Molecular Modeling Approach
V. Vasumathi et al.
MACROMOLECULES (2010)
Paternal DNA packaging in spermatozoa: more than the sum of its parts? DNA, histones, protamines and epigenetics
David Miller et al.
REPRODUCTION (2010)
Improved side-chain torsion potentials for the Amber ff99SB protein force field
Kresten Lindorff-Larsen et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2010)
Langevin thermostat for rigid body dynamics
Ruslan L. Davidchack et al.
JOURNAL OF CHEMICAL PHYSICS (2009)
A universal description for the experimental behavior of salt-(in)dependent oligocation-induced DNA condensation
Nikolay Korolev et al.
NUCLEIC ACIDS RESEARCH (2009)
Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations
In Suk Joung et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2008)
Post-translational modifications of nucleosomal histones in oligodendrocyte lineage cells in development and disease
Siming Shen et al.
JOURNAL OF MOLECULAR NEUROSCIENCE (2008)
Structure and dynamics of DNA-dendrimer complexation: Role of counterions, water, and base pair sequence
Prabal K. Maiti et al.
NANO LETTERS (2006)
Recent Advances in Free Energy Calculations with a Combination of Molecular Mechanics and Continuum Models
Junmei Wang et al.
CURRENT COMPUTER-AIDED DRUG DESIGN (2006)
Protamines and male infertility
Rafael Oliva
HUMAN REPRODUCTION UPDATE (2006)
AMBER force-field parameters for phosphorylated amino acids in different protonation states: phosphoserine, phosphothreonine, phosphotyrosine, and phosphohistidine
N Homeyer et al.
JOURNAL OF MOLECULAR MODELING (2006)
DrugBank: a comprehensive resource for in silico drug discovery and exploration
David S. Wishart et al.
NUCLEIC ACIDS RESEARCH (2006)
Histone H1 depletion in mammals alters global chromatin structure but causes specific changes in gene regulation
YH Fan et al.
CELL (2005)
Scalable molecular dynamics with NAMD
JC Phillips et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2005)
Histone structure and nucleosome stability
Leonardo Marino-Ramirez et al.
EXPERT REVIEW OF PROTEOMICS (2005)
The two-phase model for calculating thermodynamic properties of liquids from molecular dynamics: Validation for the phase diagram of Lennard-Jones fluids
ST Lin et al.
JOURNAL OF CHEMICAL PHYSICS (2003)
Structure and dynamics of the TIP3P, SPC, and SPC/E water models at 298 K
P Mark et al.
JOURNAL OF PHYSICAL CHEMISTRY A (2001)
Thermodynamics of DNA binding and condensation: Isothermal titration calorimetry and electrostatic mechanism
D Matulis et al.
JOURNAL OF MOLECULAR BIOLOGY (2000)
Share Paper
