MD Simulation Input Files and MR Code for APOE/TNF Colocalization Study

The GWAS summary statistics used in this study are publicly available from the GWAS Catalog (accession codes: GCST90468338, GCST90133317), as well as the FinnGen, GBMI, deCODE, and eQTLGen consortia. All generated data, including detailed Mendelian Randomization (MR) results and structural coordinates, are provided in the Supporting Information. To ensure full reproducibility, the complete GROMACS molecular dynamics (MD) input files (starting coordinates, topologies, and parameters) for all simulated systems, along with the custom R script for statistical analyses, have been deposited in Zenodo (DOI: 10.5281/zenodo.21272108). Due to file size constraints, full MD trajectories are not provided, but they can be independently reproduced using the deposited input files.