Dataset for manuscript titled: Female mice exhibit resistance to disease progression despite early pathology in a transgenic mouse model inoculated with alpha-synuclein fibrils

This repository contains the source data and code for the analyses in the manuscript titled "Female mice exhibit resistance to disease progression despite early pathology in a transgenic mouse model inoculated with alpha-synuclein fibrils", accepted for publication at Communications Biology. Main subject file csv: masterfile-all-timepoint-data.csv however additional csv files used for analysis are as following: PT-WH-behavioural-data-bytrial-for-coxanalysis.csv -- data structured by trial to enable cox analysis symptom-and-survival-tracking-data.csv -- symptom tracking and survival information provided separately sex-difference-western-blot-data.xlsx -- western blot data collected and analyzed by Vladislav Novikov and Rodrigo Sandoval Contreras All *.R files are R code scripts and named according to the analysis performed Behavioural analyses survival-plot.R symptom_profile.R weight-rotarod-plots.R PT-cox-analysis.R PT-cox-analysis-sex-specific.R WH-cox-analysis.R WH-cox-analysis-sex-specific.R Deformation-based analysis: voxel-wise volume trajectories dbm-template.mnc dbm-template-mask.mnc DBM-models-and-peak-voxel-plots.R linear models: M83-HuvsPBS-model.rds M83-HuvsPBS-model-females-only.rds M83-HuvsPBS-model-males-only.rds M83HuPFF-MvsF-model-male-effect-female-reference.rds statistical maps for the 4 linear models: DBM-statsmap-M83-HuvsPBS.mnc DBM-statsmap-M83HuvsPBS-withsex.mnc DBM-statsmap-M83-HuvsPBS-females-only.mnc DBM-statsmap-M83-HuvsPBS-males-only.mnc DBM-statsmap-M83HuPFF-MvsF-male-effect-female-reference.mnc Orthogonal projective non-negative martix factorization analysis 4 OPNMF runs were performed: 1) 90 dpi all subjects; 2) 90 dpi female only; 3) 90 dpi male only; 4) 120 dpi all subjects each run has an .R script, 6 minc files containing the spatial pattens for each of the 6 output components, and a csv file containing the subject weights