Application of optical tweezer technology reveals that PfEBA and PfRH ligands, not PfMSP1, play a central role in Plasmodium-falciparum merozoite-erythrocyte attachment, Supporting Information

This repository contains the dataset and analysis scripts associated with the upcoming publication titled Application of optical tweezer technology reveals that PfEBA and PfRH ligands, not PfMSP1, play a central role in Plasmodium-falciparum merozoite-erythrocyte attachment. The repository includes a comprehensive collection of data and scripts related to optical tweezer experiments, growth assays, qPCR data, and supplementary information. It is organized into several sections, each detailing different aspects of the study:

• Growth Assays: Includes raw and processed data on parasitemia levels, invasion rates, and growth rate assays, along with corresponding Jupyter notebooks and Python scripts for data visualization (e.g., GrowthAssayPlotlib.py, Plot GA1.ipynb, and GA2_df_melted.json).
• qPCR Data: Contains results from multiple qPCR runs, including quantification data for various samples, as well as analysis scripts and plotted results (qpcr_plotbench.ipynb, qPCR_plotting.py, etc.). Data files such as .xlsx and .json contain gene expression data and fold changes to NF54.
• Optical Tweezer Experiments: Includes detailed results and plots from optical tweezer measurements of attachment forces, time dependence, and multiple merozoite attachments. Notebooks (tweezer_plots.ipynb, Antibody_binding_assay_plots.ipynb) and data files support these analyses.
• Optical Tweezer Images: Includes images that were used to measure RBC diameters for deformation and force measurements in .tiff format.
• Supplementary Information (SI): Provides additional data and visualizations, such as scatter plots of two stretched RBCs, time post-egress vs. detachment force, and antibody GIA flow data. The accompanying figures (e.g., SupFig1d_egress time vs force_3D7.svg, SupFig5a_GIA.svg) are provided as .svg files.

This repository offers all necessary resources to replicate the findings, including the complete codebase, raw data, and graphical representations of results. Researchers are encouraged to explore the included notebooks and datasets for detailed insights.