A guide to single-cell RNA sequencing analysis using web-based tools for non-bioinformatician.
A guide to single-cell RNA sequencing analysis using web-based tools for non-bioinformatician.
复制标题
面向非生物信息学家的使用基于网络的工具进行单细胞 RNA 测序分析的指南。
DOI：
10.1111/febs.17036
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发表时间：
2023
期刊：
影响因子：
--
通讯作者：
Giorgio,ToddD
中科院分区：
文献类型：
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作者：
Yarlagadda,Sagnik;Giorgio,ToddD
单细胞RNA测序（scRNA-seq）是一种已被证明是广泛领域和研究的强大工具的技术。然而，scRNA-seq数据分析一直由在生物信息学方面训练有素的科学家或具有丰富计算经验和理解的科学家主导。最近，这种趋势已经开始转变，因为已经开发出更用户友好的基于网络的scRNA-seq分析工具，这些工具几乎不需要使用计算经验。然而，非生物信息学家在使用这种技术方面仍然存在障碍。复杂，不熟悉的语言和缺乏全面的文献指导，以提供理解scRNA-seq分析输出的框架是障碍之一。本文介绍了许多流行的scRNA-seq网络工具，并概述了它们的用户界面和功能。然后，详细描述了一个全面的从开始到结束的介绍性scRNA-seq分析管道，其目的是使研究人员能够进行scRNA-seq分析，无论计算经验如何。配套视频教程可以在YouTube上的“EasyScRNAseqTuesday”找到（https：//www.youtube.com/@cnaseqtutorials）。然而，随着scRNA-seq继续渗透到新的领域并扩大其重要性，仍然需要更多的文献来帮助克服其使用的障碍，进一步解释本文中介绍的高度复杂和先进的分析。
Single‐cell RNA sequencing (scRNA‐seq) is a technique that has proven to be a powerful tool for a wide range of fields and research studies. However, scRNA‐seq data analysis has been dominated by scientists highly trained in bioinformatics or those with extensive computational experience and understanding. Recently, this trend has begun to shift as more user‐friendly web‐based scRNA‐seq analysis tools have been developed that require little computational experience to use. However, barriers persist for nonbioinformaticians in using this technique. Complex, unfamiliar language and scarce comprehensive literature guidance to provide a framework for understanding scRNA‐seq analysis outputs are among the obstacles. This work introduces many popular web‐based tools for scRNA‐seq and provides a general overview of their user interfaces and features. Then, a comprehensive start‐to‐finish introductory scRNA‐seq analysis pipeline is described in detail, which aims to enable researchers to carry out scRNA‐seq analysis, regardless of computational experience. Companion video tutorials can be found at “EasyScRNAseqTutorials” on YouTube (https://www.youtube.com/@scrnaseqtutorials). However, as scRNA‐seq continues to penetrate new fields and expand in importance, there remains a need for more literature to help overcome barriers to its use by explaining further the highly complex and advanced analyses that are introduced within this paper.