Practical Compass of Single-Cell RNA-Seq Analysis.

IF 4.3 2区医学 Current Osteoporosis Reports Pub Date : 2024-10-01 Epub Date: 2023-11-29 DOI:10.1007/s11914-023-00840-4

Hiroyuki Okada, Ung-Il Chung, Hironori Hojo

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Abstract

Purpose of review: This review paper provides step-by-step instructions on the fundamental process, from handling fastq datasets to illustrating plots and drawing trajectories.

Recent findings: The number of studies using single-cell RNA-seq (scRNA-seq) is increasing. scRNA-seq revealed the heterogeneity or diversity of the cellular populations. scRNA-seq also provides insight into the interactions between different cell types. User-friendly scRNA-seq packages for ligand-receptor interactions and trajectory analyses are available. In skeletal biology, osteoclast differentiation, fracture healing, ectopic ossification, human bone development, and the bone marrow niche have been examined using scRNA-seq. scRNA-seq data analysis tools are still being developed, even at the fundamental step of dataset integration. However, updating the latest information is difficult for many researchers. Investigators and reviewers must share their knowledge of in silico scRNA-seq for better biological interpretation. This review article aims to provide a useful guide for complex analytical processes in single-cell RNA-seq data analysis.

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单细胞RNA-Seq分析实用指南。

回顾的目的:这篇回顾论文提供了从处理快速数据集到说明绘图和绘制轨迹的基本过程的逐步指导。最新发现:使用单细胞RNA-seq (scRNA-seq)的研究越来越多。scRNA-seq揭示了细胞群体的异质性或多样性。scRNA-seq还提供了不同细胞类型之间相互作用的见解。用户友好的scRNA-seq包配体受体相互作用和轨迹分析是可用的。在骨骼生物学中，破骨细胞分化、骨折愈合、异位骨化、人骨发育和骨髓生态位已经使用scRNA-seq进行了研究。scRNA-seq数据分析工具仍在开发中，即使在数据集集成的基本步骤。然而，更新最新的信息对许多研究人员来说是困难的。研究者和审稿人必须分享他们的硅scRNA-seq知识，以便更好地进行生物学解释。本文旨在为单细胞RNA-seq数据分析中复杂的分析过程提供有用的指导。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Current Osteoporosis Reports ENDOCRINOLOGY & METABOLISM-

CiteScore

8.40

自引率

2.30%

发文量

期刊介绍： This journal intends to provide clear, insightful, balanced contributions by international experts that review the most important, recently published clinical findings related to the diagnosis, treatment, management, and prevention of osteoporosis. We accomplish this aim by appointing international authorities to serve as Section Editors in key subject areas, such as current and future therapeutics, epidemiology and pathophysiology, and evaluation and management. Section Editors, in turn, select topics for which leading experts contribute comprehensive review articles that emphasize new developments and recently published papers of major importance, highlighted by annotated reference lists. An international Editorial Board reviews the annual table of contents, suggests articles of special interest to their country/region, and ensures that topics are current and include emerging research. Commentaries from well-known figures in the field are also provided.

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