Anisotropic Gold Nanomaterial Synthesis Using Peptide Facet Specificity and Timed Intervention: Experiment and simulation data, figures, and notebooks for recreating figures

Content Summary:

• Data from experiments in which gold nanoparticles were synthesized in the presence of peptides using a liquid-handling robot. Samples were analyzed using UV-Vis spectroscopy, DLS, SAXS, TEM, SAED, SEM, and MD. 
• Notebooks for loading and plotting data

Readme.docx:

/Data

Contains all experimental and simulation data used to generate figures in the manuscript. Each folder is labelled with the relevant technique: atomic force microscopy (AFM), dynamic light scattering (DLS), molecular dynamics (MD), small-angle X-ray scattering (SAXS), scanning electron microscopy (SEM), transmission electron microscopy and selected area electron diffraction (TEM-SAED), and ultraviolet-visible light spectroscopy (UV-Vis). Folders may contain subfolders from different experiments and should be unchanged for the notebooks to point to the correct path when loading data. Any file which contains SI in the filename indicates sample information, which includes sample concentration, delay associated with creating the sample (Delay4 is the relevant column name), unique identification (UID), etc.

/Data/AFM

Each filename is labelled with the number of delay associated with the sample or No Z2 Control in the case of the control sample. Each sample contains 3 files, the raw AFM data, a processed image, and an excel file with line profile measurements.

/Data/DLS

Contains exported data from Malvern Nano ZS DLS instrument.

/Data/Images

Images from the colloidal stability experiment.

/Data/MD

Molecular dynamics data and some notebooks for processing peptide and facet combinations.

/Data/SAXS

Reduced SAXS data from time-resolved study of nanoplatelet growth.

/Data/SEM

SEM images of samples prepared with and without dynamic intervention (control).

/Data/TEM_SAED

TEM images of samples prepared without dynamic intervention (control), and SAED image of a nanoplatelet.

/Data/UV-Vis

Spectroscopy data from different Z2 variants, the microplate based stability assay, cuvette based stability assay, and the time resolved (kinetics) measurements of particle growth as a result of manual dynamic intervention.

/Notebooks

This folder contains all of the Jupyter notebooks used to plot data and fit SAXS scattering profiles.

See /Notebooks/environment.yml for packages necessary to execute the notebooks here and in /Synthesis_Protocol. We recommend installing this environment by using:

Refer to  https://github.com/SasView/sasmodels and the first cell of /Notebooks/SAXS_Fitting.ipynb for specific instructions on how to complete installation of the sasmodels module (sasmodels will be installed by Pip if you correctly use the shared environment.yml file).

/Figures

Figures presented in the publication