Modelling amyloid fibril formation kinetics: mechanisms of nucleation and growth

JE Gillam, CE MacPhee - Journal of Physics: Condensed Matter, 2013 - iopscience.iop.org
Amyloid and amyloid-like fibrils are self-assembling protein nanostructures, of interest for
their robust material properties and inherent biological compatibility as well as their putative …

Controlling the structure and length of self‐synthesizing supramolecular polymers through nucleated growth and disassembly

A Pal, M Malakoutikhah, G Leonetti… - Angewandte Chemie …, 2015 - Wiley Online Library
Directing self‐assembly processes out‐of‐equilibrium to yield kinetically trapped materials
with well‐defined dimensions remains a considerable challenge. Kinetically controlled …

Measurement of tau filament fragmentation provides insights into prion-like spreading

F Kundel, L Hong, B Falcon, WA McEwan… - ACS chemical …, 2018 - ACS Publications
The ordered assembly of amyloidogenic proteins causes a wide spectrum of common
neurodegenerative diseases, including Alzheimer's and Parkinson's diseases. These …

A kinetic study of amyloid formation: fibril growth and length distributions

JS Schreck, JM Yuan - The Journal of Physical Chemistry B, 2013 - ACS Publications
We propose a kinetic model for the self-aggregation by amyloid proteins. By extending
several well-known models for protein aggregation, the time evolution of aggregate …

Single-molecular heteroamyloidosis of human islet amyloid polypeptide

A Kakinen, Y Xing, N Hegoda Arachchi, I Javed… - Nano …, 2019 - ACS Publications
Human amyloids and plaques uncovered post mortem are highly heterogeneous in structure
and composition, yet literature concerning the heteroaggregation of amyloid proteins is …

Inherent variability in the kinetics of autocatalytic protein self-assembly

J Szavits-Nossan, K Eden, RJ Morris, CE MacPhee… - Physical Review Letters, 2014 - APS
In small volumes, the kinetics of filamentous protein self-assembly is expected to show
significant variability, arising from intrinsic molecular noise. This is not accounted for in …

Thermodynamics for reduced models of chemical reactions by PEA and QSSA

L Peng, L Hong - Physical Review Research, 2024 - APS
The partial equilibrium approximation (PEA) and the quasi-steady-state approximation
(QSSA) are two classical methods for reducing complex macroscopic chemical reactions …

Scaling and dimensionality in the chemical kinetics of protein filament formation

TCT Michaels, AJ Dear, TPJ Knowles - International Reviews in …, 2016 - Taylor & Francis
The formation of elongated supra-molecular structures from protein building blocks
generates functional intracellular filaments, but this process is also at the heart of many …

When machine learning meets multiscale modeling in chemical reactions

W Yang, L Peng, Y Zhu, L Hong - The Journal of Chemical Physics, 2020 - pubs.aip.org
Due to the intrinsic complexity and nonlinearity of chemical reactions, direct applications of
traditional machine learning algorithms may face many difficulties. In this study, through two …

Stochastic lag time in nucleated linear self-assembly

NS Tiwari, P van der Schoot - The Journal of Chemical Physics, 2016 - pubs.aip.org
Protein aggregation is of great importance in biology, eg, in amyloid fibrillation. The
aggregation processes that occur at the cellular scale must be highly stochastic in nature …