Cross-tissue immune cell analysis reveals tissue-specific features in humans

作者：C. Conde, C. Xu, LB Jarvis, DB Rainbow, S. Wells, T. Gomes, S. Howlett, O. Suchanek, K. Polański, HW King, L. Mamanova, N. Huang, P. Szabó, L. Richardson, L. Bolt, ES Fasouli, K. Mahbubani, M. Prete, L. Tuck, N. Richoz, ZK Tuong, L. Campos, HS Mousa, EJ Needham, S. Pritchard, T. Li, R. Elmentaite, J. Park, E. Rahmani, D. Chen, D. Menon, O. Bayraktar, L. James, K. Meyer, N. Yosef, Clatworthy, Patrick C. Sims, DL Farber, K. Saeb-Parsy, Jl Jones, S. Teichmann · 发表于：Science · 年份：2022 · DOI：10.1126/science.abl5197 · 被引用次数：1029 · 研究领域：Medicine

Despite their crucial role in health and disease, our knowledge of immune cells within human tissues remains limited. We surveyed the immune compartment of 16 tissues from 12 adult donors by single-cell RNA sequencing and VDJ sequencing generating a dataset of ~360,000 cells. To systematically resolve immune cell heterogeneity across tissues, we developed CellTypist, a machine learning tool for rapid and precise cell type annotation. Using this approach, combined with detailed curation, we determined the tissue distribution of finely phenotyped immune cell types, revealing hitherto unappreciated tissue-specific features and clonal architecture of T and B cells. Our multitissue approach lays the foundation for identifying highly resolved immune cell types by leveraging a common reference dataset, tissue-integrated expression analysis, and antigen receptor sequencing. Description Immune cell diversity in the human body The human immune system is composed of many different cell types spread across the entire body, but little is currently known about the fine-grained variations in these cell types across organs. Using single-cell genomics, Domínguez Conde et al. examined the gene expression profile of more than 300,000 individual immune cells extracted from 16 different tissues in 12 deceased adult organ donors (see the Perspective by Liu and Zhang). Cell identity was assigned using CellTypist, an automated cell classification tool designed by the authors. In-depth data analysis ...