Cell of origin alters myeloid immunoreactive states in the tumor microenvironment

All datasets and scripts shown here were used to generate the findings reported in this study. The supplemental materials comprise a comprehensive, multi-modal translational data resource integrating <b>murine and human lung adenocarcinoma (LUAD)</b> models. Specifically, the files include annotated single-cell RNA-sequencing (scRNA-seq) and Visium spatial transcriptomic datasets, cell–cell communication analyses, trajectory inference outputs, and pathway enrichment tables.The <b>RDS and R Markdown files</b> contain pre-processed and annotated Seurat objects for AT1- and AT2-derived LUAD tumors, LIANA-based ligand–receptor interaction matrices, and trajectory models used to reconstruct immune and stromal cell state transitions. The <b>R and Jupyter scripts</b> document all computational workflows used for integration, normalization, clustering, UCell scoring, and cross-species validation. The <b>Excel and PDF tables</b> summarize cell-type compositions, differentially expressed genes, pathway enrichment analyses, and comparative human–mouse interaction data that support each figure in the paper.Together, these datasets form the analytical foundation of a <b>multi-model, cross-species translational framework</b> that bridges murine lineage-defined LUAD models with human tumor data to elucidate <b>cell-of-origin–dependent immune and stromal remodeling</b> within the tumor microenvironment. All results, figures, and quantitative conclusions presented in the manuscript were derived from these underlying data.

本文展示的全部数据集与脚本，均用于生成本研究报告中的各项研究发现。本补充材料为一套综合性多模态转化数据资源，整合了**小鼠与人类肺腺癌（lung adenocarcinoma, LUAD）**模型。具体而言，本批文件包含经注释的单细胞RNA测序（single-cell RNA-sequencing, scRNA-seq）与Visium空间转录组数据集、细胞间通讯分析结果、轨迹推断输出结果，以及通路富集分析表格。**RDS与R Markdown文件**中包含经预处理与注释的、源自AT1及AT2细胞的肺腺癌肿瘤Seurat对象、基于LIANA的配体-受体相互作用矩阵，以及用于重建免疫与基质细胞状态转变的轨迹模型。**R与Jupyter脚本**则记录了用于数据整合、标准化、聚类、UCell评分以及跨物种验证的全部计算流程。**Excel与PDF表格**汇总了细胞类型组成、差异表达基因、通路富集分析结果，以及支撑本文各图表的人类-小鼠相互作用比较数据。上述数据集共同构成了一套**多模型跨物种转化框架**的分析基础，该框架连接了经谱系定义的小鼠肺腺癌模型与人类肿瘤数据，旨在阐明肿瘤微环境中**起源细胞依赖性免疫与基质重塑**过程。本文手稿中展示的全部结果、图表与定量结论，均源自上述基础数据集。