Elucidating spatiotemporal changes in gene expression has been an essential goal in studies of health, development, and disease. In the emerging field of spatially resolved transcriptomics, gene expression profiles are acquired with the tissue architecture maintained, sometimes at cellular resolution. This has allowed for the development of spatial cell atlases, studies of cell–cell interactions, and in situ cell typing. In this review, we focus on padlock probe–based in situ sequencing, which is a targeted spatially resolved transcriptomic method. We summarize recent methodological and computational tool developments and discuss key applications. We also discuss compatibility with other methods and integration with multiomic platforms for future applications.

中文翻译：

---

基于挂锁探针的靶向原位测序：方法和应用概述

阐明基因表达的时空变化一直是健康、发育和疾病研究的基本目标。在新兴的空间分辨转录组学领域，基因表达谱是在保持组织结构的情况下获得的，有时是在细胞分辨率下获得的。这使得空间细胞图谱的开发、细胞与细胞相互作用的研究以及原位细胞分型成为可能。在这篇综述中，我们重点关注基于挂锁探针的原位测序，这是一种有针对性的空间分辨转录组学方法。我们总结了最近的方法和计算工具的发展并讨论了关键应用。我们还讨论了与其他方法的兼容性以及与未来应用的多组学平台的集成。