Developing initial conditions for simulations of asymmetric membranes: a practical recommendation

The Extended Eighth‐Shell method for periodic boundary conditions with rotational symmetry

(2021) Samarjeet Prasad et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Plasma membranes are asymmetric in lipid unsaturation, packing and protein shape

(2020) J. H. Lorent et al.   Nature Chemical Biology

Creating Asymmetric Phospholipid Vesicles via Exchange With Lipid-Coated Silica Nanoparticles

(2020) Yangmingyue Liu et al.   LANGMUIR

Structural and functional consequences of reversible lipid asymmetry in living membranes

(2020) Milka Doktorova et al.   Nature Chemical Biology

Bilayer membranes with frequent flip-flops have tensionless leaflets

(2019) Markus Sakari Miettinen et al.   NANO LETTERS

Membrane Asymmetry Imposes Directionality on Lipid Droplet Emergence from the ER

(2019) Aymeric Chorlay et al.   DEVELOPMENTAL CELL

Membrane Structure–Function Insights from Asymmetric Lipid Vesicles

(2019) Erwin London   ACCOUNTS OF CHEMICAL RESEARCH

Area Compressibility Moduli of the Monolayer Leaflets of Asymmetric Bilayers from Simulations

(2019) John F. Nagle   BIOPHYSICAL JOURNAL

Asymmetric Bilayers by Hemifusion: Method and Leaflet Behaviors

(2019) Thais A. Enoki et al.   BIOPHYSICAL JOURNAL

Phosphatidylserine on viable sperm and phagocytic machinery in oocytes regulate mammalian fertilization

(2019) Claudia M. Rival et al.   Nature Communications

Spontaneous Curvature, Differential Stress, and Bending Modulus of Asymmetric Lipid Membranes

(2019) Amirali Hossein et al.   BIOPHYSICAL JOURNAL

Plasma membrane asymmetry of lipid organization: fluorescence lifetime microscopy and correlation spectroscopy analysis

(2019) Anjali Gupta et al.   JOURNAL OF LIPID RESEARCH

An Asymmetry in Monolayer Tension Regulates Lipid Droplet Budding Direction

(2018) Aymeric Chorlay et al.   BIOPHYSICAL JOURNAL

The glycolipid GM1 reshapes asymmetric biomembranes and giant vesicles by curvature generation

(2018) Raktim Dasgupta et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accurate in silico modeling of asymmetric bilayers based on biophysical principles

(2018) Milka Doktorova et al.   BIOPHYSICAL JOURNAL

Analysis of Lipid Order States and Domains in Lipid Bilayer Simulations

(2018) Soohyung Park et al.   Journal of Chemical Theory and Computation

OpenMM 7: Rapid development of high performance algorithms for molecular dynamics

(2017) Peter Eastman et al.   PLoS Computational Biology

On the molecular mechanism of flippase- and scramblase-mediated phospholipid transport

(2016) Cédric Montigny et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS

GM1 Softens POPC Membranes and Induces the Formation of Micron-Sized Domains

(2016) Nico Fricke et al.   BIOPHYSICAL JOURNAL

Influence of Ganglioside GM1 Concentration on Lipid Clustering and Membrane Properties and Curvature

(2016) Dhilon S. Patel et al.   BIOPHYSICAL JOURNAL

Exposure of phosphatidylserine on the cell surface

(2016) S Nagata et al.   CELL DEATH AND DIFFERENTIATION

Studying the effects of asymmetry on the bending rigidity of lipid membranes formed by microfluidics

(2016) K. Karamdad et al.   CHEMICAL COMMUNICATIONS

Ganglioside-Lipid and Ganglioside-Protein Interactions Revealed by Coarse-Grained and Atomistic Molecular Dynamics Simulations

(2016) Ruo-Xu Gu et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Subnanometer Structure of an Asymmetric Model Membrane: Interleaflet Coupling Influences Domain Properties

(2016) Frederick A. Heberle et al.   LANGMUIR

Membrane mechanical properties of synthetic asymmetric phospholipid vesicles

(2016) Li Lu et al.   Soft Matter

Measurements of the effect of membrane asymmetry on the mechanical properties of lipid bilayers

(2015) Yuval Elani et al.   CHEMICAL COMMUNICATIONS

Fluid lipid membranes: From differential geometry to curvature stresses

(2015) Markus Deserno   CHEMISTRY AND PHYSICS OF LIPIDS

How Tolerant are Membrane Simulations with Mismatch in Area per Lipid between Leaflets?

(2015) Soohyung Park et al.   Journal of Chemical Theory and Computation

CHARMM-GUI Input Generator for NAMD, GROMACS, AMBER, OpenMM, and CHARMM/OpenMM Simulations Using the CHARMM36 Additive Force Field

(2015) Jumin Lee et al.   Journal of Chemical Theory and Computation

EFF-1-mediated regenerative axonal fusion requires components of the apoptotic pathway

(2015) Brent Neumann et al.   NATURE

Coupling of bending and stretching deformations in vesicle membranes

(2014) Reinhard Lipowsky   ADVANCES IN COLLOID AND INTERFACE SCIENCE

CHARMM All-Atom Additive Force Field for Sphingomyelin: Elucidation of Hydrogen Bonding and of Positive Curvature

(2014) Richard M. Venable et al.   BIOPHYSICAL JOURNAL

Roles and regulation of phospholipid scramblases

(2014) Karthik M. Kodigepalli et al.   FEBS LETTERS

CHARMM-GUIMembrane Buildertoward realistic biological membrane simulations

(2014) Emilia L. Wu et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Lipid Organization of the Plasma Membrane

(2014) Helgi I. Ingólfsson et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Constitutive phospholipid scramblase activity of a G protein-coupled receptor

(2014) Michael A. Goren et al.   Nature Communications

Open Questions in Lipid Droplet Biology

(2013) Yuki Ohsaki et al.   CHEMISTRY & BIOLOGY

Acyl Chain Length and Saturation Modulate Interleaflet Coupling in Asymmetric Bilayers: Effects on Dynamics and Structural Order

(2012) Salvatore Chiantia et al.   BIOPHYSICAL JOURNAL

The Solvation Structure of Na+ and K+ in Liquid Water Determined from High Level ab Initio Molecular Dynamics Simulations

(2012) Christopher N. Rowley et al.   Journal of Chemical Theory and Computation

Transmembrane Helix Assembly by Window Exchange Umbrella Sampling

(2012) Soohyung Park et al.   PHYSICAL REVIEW LETTERS

Critical role of a transmembrane lysine in aminophospholipid transport by mammalian photoreceptor P4-ATPase ATP8A2

(2012) J. A. Coleman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diurnal, localized exposure of phosphatidylserine by rod outer segment tips in wild-type but not Itgb5-/- or Mfge8-/- mouse retina

(2012) L. Ruggiero et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Preparation and Properties of Asymmetric Large Unilamellar Vesicles: Interleaflet Coupling in Asymmetric Vesicles Is Dependent on Temperature but Not Curvature

(2011) Hui-Ting Cheng et al.   BIOPHYSICAL JOURNAL

Membrane nanotubes induced by aqueous phase separation and stabilized by spontaneous curvature

(2011) Y. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Update of the CHARMM All-Atom Additive Force Field for Lipids: Validation on Six Lipid Types

(2010) Jeffery B. Klauda et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Molecular Model of a Cell Plasma Membrane With an Asymmetric Multicomponent Composition: Water Permeation and Ion Effects

(2009) Robert Vácha et al.   BIOPHYSICAL JOURNAL

CHARMM-GUI Membrane Builder for Mixed Bilayers and Its Application to Yeast Membranes

(2009) Sunhwan Jo et al.   BIOPHYSICAL JOURNAL

CHARMM: The biomolecular simulation program

(2009) B. R. Brooks et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Flip-Flop of Phospholipids in Vesicles: Kinetic Analysis with Time-Resolved Small-Angle Neutron Scattering

(2009) Minoru Nakano et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Specific Lipids Supply Critical Negative Spontaneous Curvature—An Essential Component of Native Ca2+-Triggered Membrane Fusion

(2008) Matthew A. Churchward et al.   BIOPHYSICAL JOURNAL

CHARMM-GUI: A web-based graphical user interface for CHARMM

(2008) Sunhwan Jo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Application of Mean Field Boundary Potentials in Simulations of Lipid Vesicles

(2008) H. Jelger Risselada et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Membrane lipids: where they are and how they behave

(2008) Gerrit van Meer et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY