Cho Christina, Haddadi Nazgol-Sadat, Kidacki Michal, Woodard Gavitt A, Shakiba Saeed, Yıldız-Altay Ümmügülsüm, Richmond Jillian M, Vesely Matthew D
Department of Immunobiology, Yale School of Medicine, New Haven, Connecticut, USA.
Department of Dermatology, University of Massachusetts Medical School, Worcester, Massachusetts, USA.
JID Innov. 2024 Sep 27;5(1):100317. doi: 10.1016/j.xjidi.2024.100317. eCollection 2025 Jan.
The spatial organization of the skin is critical for its function. In particular, the skin immune microenvironment is arranged spatially and temporally, such that imbalances in the immune milieu are indicative of disease. Spatial transcriptomic platforms are helping to provide additional insights into aberrant inflammation in tissues that are not captured by tissue processing required for single-cell RNA sequencing. In this paper, we discuss a technical and user experience overview of NanoString's GeoMx Digital Spatial Profiler to perform in-depth spatial analysis of the transcriptome in inflammatory skin diseases. Our objective is to provide potential pitfalls and methods to optimize RNA capture that are not readily available in the manufacturer's guidelines. We use concrete examples from our experiments to demonstrate these strategies in inflammatory skin diseases, including psoriasis, lichen planus, and discoid lupus erythematosus. Overall, we hope to illustrate the potential of digital spatial profiling to dissect skin disease pathogenesis in a spatially resolved manner and provide a framework for other skin biology investigators using digital spatial profiling.
皮肤的空间组织对其功能至关重要。特别是，皮肤免疫微环境在空间和时间上都有特定的排列，因此免疫环境的失衡表明存在疾病。空间转录组学平台有助于提供更多关于组织中异常炎症的见解，而这些是单细胞RNA测序所需的组织处理无法捕捉到的。在本文中，我们讨论了NanoString公司的GeoMx数字空间分析平台在炎症性皮肤病转录组深度空间分析方面的技术和用户体验概述。我们的目标是提供制造商指南中未提及的潜在陷阱以及优化RNA捕获的方法。我们通过实验中的具体例子来展示这些在炎症性皮肤病中的策略，包括银屑病、扁平苔藓和盘状红斑狼疮。总体而言，我们希望说明数字空间分析以空间解析的方式剖析皮肤病发病机制的潜力，并为其他使用数字空间分析的皮肤生物学研究人员提供一个框架。
