Genetic prioritization and donor-resolved microglial expression of GRN in Alzheimer's disease: reproducibility data and code
Abstract
This archive (v1.0.0) accompanies the manuscript "Genetic prioritization and donor-resolved microglial expression of GRN in Alzheimer's disease". It contains the reproducibility bundle: analysis code with identified intermediate inputs, complete reported result families for the transcriptome-wide genetic screen (9,561-gene MR with exposure-uncertainty sensitivity and external fixed-instrument replication), regional and protein-level colocalization, large-reference fine-mapping diagnostics, donor-level human microglial expression across four cohorts (edgeR/voom with donor bootstrap), SEA-AD quantitative-pathology and composition models, public GRN perturbation analyses, editable workbooks and full TSV result tables including non-significant results, publication-figure code and exact panel source data, verified bibliographic metadata, and numerical validation records for every module. Redistribution boundary: 12 genetic third-party-derived inputs and 3 imported GWAS region-statistics files (with identical copies) whose source-specific redistribution terms were unresolved are withheld and replaced by documented retrieval routes with exact versions and SHA-256 checksums in HELD_INPUTS_RETRIEVAL.md; with these inputs withheld the genetics module replay is partial in this public archive. License: MIT for original analysis and figure code; CC BY 4.0 for curated study result tables and figure source data. Correspondence: Zehua Luo (luozehua@hospital.cqmu.edu.cn). 中文说明:本档案(v1.0.0)配合手稿《Genetic prioritization and donor-resolved microglial expression of GRN in Alzheimer's disease》,包含可复现包:带已识别中间输入的分析代码、跨 9,561 基因的转录组范围遗传筛选完整结果族(含暴露不确定性敏感性与外部固定工具变量复现)、区域与蛋白水平共定位、大参考精细定位诊断、四个队列的供体水平小胶质细胞表达(edgeR/voom 与供体自助法)、SEA-AD 定量病理与组成模型、公开 GRN 扰动分析、可编辑工作簿与含阴性结果的完整 TSV 结果表、出版图代码与逐面板源数据、经核验的文献元数据及各模块数值验证记录。再分发边界:12 个遗传第三方衍生输入与 3 个导入的 GWAS 区域统计文件(及其相同副本)因源特定再分发条款未决而未随档分发,已替换为 HELD_INPUTS_RETRIEVAL.md 中带精确版本与 SHA-256 校验和的获取路径;因此公开档案中遗传模块重放为部分重放。代码采用 MIT 许可,整理结果表与图源数据采用 CC BY 4.0。通信作者:罗则华(luozehua@hospital.cqmu.edu.cn)。
