Abstract
Cellular membrane lipid composition is implicated in diseases and major biological functions in cells, but membranes are difficult to study experimentally due to their intrinsic disorder and complex phase behaviour. Molecular dynamics (MD) simulations have been useful in understanding membrane systems, but they require significant computational resources and often suffer inaccuracies in model parameters. Applications of data-driven and machine learning methods, currently revolutionising many fields, are limited to membrane systems due to the lack of suitable training sets. Here we present the NMRlipids Databank---a community-driven, open-for-all database featuring programmatic access to quality evaluated atom-resolution MD simulations of lipid bilayers. The NMRlipids databank will benefit scientists in different disciplines by providing automatic ranking of simulations based on their quality against experiments, flexible implementations of data-driven and machine learning applications, and rapid access to simulation data via graphical user interface. To demonstrate the unlocked possibilities beyond current MD simulation studies, we analyzed how anisotropic diffusion of water and cholesterol flip-flop rates depend on membrane properties.
Supplementary materials
Title
SUPPLEMENTARY INFORMATION: NMRlipids Databank makes data-driven analysis of biomembrane properties accessible for all
Description
Supporting figures and tables showing results, experimental data and details on the databank.
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