Code and dataset for: CRTC1 knockdown disrupts cortical homeostasis and induces widespread IEG expression in the marmoset visual cortex

This repository provides the dataset and analysis code used in the study:Nakagami et al., "CRTC1 knockdown disrupts cortical homeostasis and induces widespread immediate early gene expression in the marmoset visual cortex", Neuroscience Research (in press).The repository contains the cleaned hemisphere-level dataset and analysis scripts used to reproduce the statistical results reported in Table 2 and Supplementary Tables 5-1, 5-2, and 5-3 of the manuscript.The analysis evaluates how the number of shCRTC1#1 injection sites per hemisphere affects the ordinal category of IEG expression.A proportional-odds ordinal logistic regression model was used to test whether the number of shCRTC1#1 injection sites predicts IEG expression levels across hemispheres.These materials enable reproducibility of the statistical analysis described in the manuscript.Files includeddataset_hemisphere_level.csvCleaned hemisphere-level dataset used for ordinal logistic regression analysis.ordinal_logit_analysis.pyPython script implementing the proportional-odds ordinal logistic regression model.environment.ymlConda environment specification for reproducing the analysis environment.README.mdInstructions for reproducing the analysis results reported in the manuscript.Method descriptionStatistical analyses were performed using a proportional-odds ordinal logistic regression model.Outcome variable:Dataset and analysis code associated with:Nakagami et al., Neuroscience Research (online)Ordinal category of IEG (cFOS) expression.Predictor:Number of shCRTC1#1 injection sites per hemisphere (0–3).The script provided in this repository reproduces the results reported in Table 2 of the manuscript.Relation to figures and tables in the articleThe dataset and analysis scripts provided here reproduce the statistical analysis reported in Table 2 and Supplementary Tables 5-1 and 5-2 of the article. The dataset corresponds to hemisphere-level measurements used for the proportional-odds ordinal logistic regression analysis described in the Methods section and Table 1.Contents of this repository- dataset_hemisphere_level.csv: hemisphere-level dataset used for the ordinal logistic regression analysis- ordinal_logit_analysis.py: script implementing the proportional-odds ordinal logistic regression- environment.yml: conda environment specification for reproducing the computational environment- README.md: instructions for reproducing the analyses