空间转录组空间域识别方法的综合综述。

A comprehensive review of approaches for spatial domain recognition of spatial transcriptomes.

作者信息

Wang Ziyi, Geng Aoyun, Duan Hao, Cui Feifei, Zou Quan, Zhang Zilong

机构信息

School of Computer Science and Technology, Hainan University, Haikou 570228, China.

Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu 610054, China.

出版信息

Brief Funct Genomics. 2024 Dec 6;23(6):702-712. doi: 10.1093/bfgp/elae040.

DOI:10.1093/bfgp/elae040

PMID:39426802

Abstract

In current bioinformatics research, spatial transcriptomics (ST) as a rapidly evolving technology is gradually receiving widespread attention from researchers. Spatial domains are regions where gene expression and histology are consistent in space, and detecting spatial domains can better understand the organization and functional distribution of tissues. Spatial domain recognition is a fundamental step in the process of ST data interpretation, which is also a major challenge in ST analysis. Therefore, developing more accurate, efficient, and general spatial domain recognition methods has become an important and urgent research direction. This article aims to review the current status and progress of spatial domain recognition research, explore the advantages and limitations of existing methods, and provide suggestions and directions for future tool development.

摘要

在当前的生物信息学研究中，空间转录组学（ST）作为一项快速发展的技术，正逐渐受到研究人员的广泛关注。空间域是基因表达和组织学在空间上一致的区域，检测空间域可以更好地理解组织的结构和功能分布。空间域识别是ST数据解释过程中的一个基本步骤，也是ST分析中的一项重大挑战。因此，开发更准确、高效和通用的空间域识别方法已成为一个重要且紧迫的研究方向。本文旨在综述空间域识别研究的现状和进展，探讨现有方法的优缺点，并为未来工具的开发提供建议和方向。