VMD: Visual molecular dynamics

William Humphrey, Andrew Dalke, Klaus Schulten

Journal of Molecular Graphics

EngineeringVisual Molecular DynamicsMolecular BiologyComputational ChemistryMolecular Dynamics +3

Scalable molecular dynamics with NAMD

J. C. Phillips, Rosemary Braun, Wei Wang, +7

Journal of Computational Chemistry

Using Effect Size—or Why the P Value Is Not Enough

Gail M. Sullivan, Richard Feinn

Journal of Graduate Medical Education

Extending the treatment of backbone energetics in protein force fields: Limitations of gas‐phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulations

Alexander D. MacKerell, Michael Feig, Charles L. Brooks

Journal of Computational Chemistry

Atomic structures of amyloid cross-β spines reveal varied steric zippers

M.R. Sawaya, Shilpa Sambashivan, Rebecca A. Nelson, +10

Nature

Protein FoldingAmyloid Cross-β SpinesNatural SciencesMolecular BiologyStructural Biology +4

Structure of the cross-β spine of amyloid-like fibrils

Rebecca A. Nelson, M.R. Sawaya, Melinda Balbirnie, +4

Nature

Cross-β SpineProtein FoldingStructural BiologyProtein MisfoldingMedicine +1

3D structure of Alzheimer's amyloid-β(1–42) fibrils

Thorsten Lührs, Christiane Ritter, Marc Adrian, +5

Proceedings of the National Academy of Sciences

The RIP1/RIP3 Necrosome Forms a Functional Amyloid Signaling Complex Required for Programmed Necrosis

Jixi Li, Thomas J. McQuade, Ansgar B. Siemer, +9

Cell

InflammationAlzheimer's DiseaseCell DeathPathologyDegenerative Pathology +7

An Analytical Solution to the Kinetics of Breakable Filament Assembly

Tuomas P. J. Knowles, Christopher A. Waudby, Glyn L. Devlin, +6

Science

Biophysical ModelingEngineeringMechanical EngineeringMolecular BiologyCytoskeleton +20

Functional Amyloids As Natural Storage of Peptide Hormones in Pituitary Secretory Granules

Samir K. Maji, Marilyn H. Perrin, M.R. Sawaya, +12

Science