SAREV:单细胞RNA测序数据统计分析综述

IF 4.4 2区 数学 Q1 STATISTICS & PROBABILITY
Dorothy Ellis, Dongyuan Wu, Susmita Datta
{"title":"SAREV:单细胞RNA测序数据统计分析综述","authors":"Dorothy Ellis,&nbsp;Dongyuan Wu,&nbsp;Susmita Datta","doi":"10.1002/wics.1558","DOIUrl":null,"url":null,"abstract":"<p><p>Due to the development of next-generation RNA sequencing (NGS) technologies, there has been tremendous progress in research involving determining the role of genomics, transcriptomics and epigenomics in complex biological systems. However, scientists have realized that information obtained using earlier technology, frequently called 'bulk RNA-seq' data, provides information averaged across all the cells present in a tissue. Relatively newly developed single cell (scRNA-seq) technology allows us to provide transcriptomic information at a single-cell resolution. Nevertheless, these high-resolution data have their own complex natures and demand novel statistical data analysis methods to provide effective and highly accurate results on complex biological systems. In this review, we cover many such recently developed statistical methods for researchers wanting to pursue scRNA-seq statistical and computational research as well as scientific research about these existing methods and free software tools available for their generated data. This review is certainly not exhaustive due to page limitations. We have tried to cover the popular methods starting from quality control to the downstream analysis of finding differentially expressed genes and concluding with a brief description of network analysis.</p>","PeriodicalId":47779,"journal":{"name":"Wiley Interdisciplinary Reviews-Computational Statistics","volume":null,"pages":null},"PeriodicalIF":4.4000,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1002/wics.1558","citationCount":"2","resultStr":"{\"title\":\"SAREV: A review on statistical analytics of single-cell RNA sequencing data.\",\"authors\":\"Dorothy Ellis,&nbsp;Dongyuan Wu,&nbsp;Susmita Datta\",\"doi\":\"10.1002/wics.1558\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Due to the development of next-generation RNA sequencing (NGS) technologies, there has been tremendous progress in research involving determining the role of genomics, transcriptomics and epigenomics in complex biological systems. However, scientists have realized that information obtained using earlier technology, frequently called 'bulk RNA-seq' data, provides information averaged across all the cells present in a tissue. Relatively newly developed single cell (scRNA-seq) technology allows us to provide transcriptomic information at a single-cell resolution. Nevertheless, these high-resolution data have their own complex natures and demand novel statistical data analysis methods to provide effective and highly accurate results on complex biological systems. In this review, we cover many such recently developed statistical methods for researchers wanting to pursue scRNA-seq statistical and computational research as well as scientific research about these existing methods and free software tools available for their generated data. This review is certainly not exhaustive due to page limitations. We have tried to cover the popular methods starting from quality control to the downstream analysis of finding differentially expressed genes and concluding with a brief description of network analysis.</p>\",\"PeriodicalId\":47779,\"journal\":{\"name\":\"Wiley Interdisciplinary Reviews-Computational Statistics\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":4.4000,\"publicationDate\":\"2022-07-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://sci-hub-pdf.com/10.1002/wics.1558\",\"citationCount\":\"2\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Wiley Interdisciplinary Reviews-Computational Statistics\",\"FirstCategoryId\":\"100\",\"ListUrlMain\":\"https://doi.org/10.1002/wics.1558\",\"RegionNum\":2,\"RegionCategory\":\"数学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2021/5/20 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"Q1\",\"JCRName\":\"STATISTICS & PROBABILITY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Wiley Interdisciplinary Reviews-Computational Statistics","FirstCategoryId":"100","ListUrlMain":"https://doi.org/10.1002/wics.1558","RegionNum":2,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2021/5/20 0:00:00","PubModel":"Epub","JCR":"Q1","JCRName":"STATISTICS & PROBABILITY","Score":null,"Total":0}
引用次数: 2

摘要

由于下一代RNA测序(NGS)技术的发展,在确定基因组学、转录组学和表观基因组学在复杂生物系统中的作用方面的研究取得了巨大进展。然而,科学家们已经意识到,使用早期技术获得的信息,通常被称为“批量RNA-seq”数据,提供了组织中所有细胞的平均信息。相对较新开发的单细胞(scRNA-seq)技术使我们能够以单细胞分辨率提供转录组信息。然而,这些高分辨率数据具有其自身的复杂性,需要新的统计数据分析方法来对复杂的生物系统提供有效和高度准确的结果。在这篇综述中,我们介绍了许多最近开发的统计方法,供希望进行scRNA-seq统计和计算研究的研究人员使用,以及对这些现有方法和可用于生成数据的免费软件工具的科学研究。由于篇幅限制,这篇综述肯定不是详尽无遗的。我们试图涵盖从质量控制到寻找差异表达基因的下游分析的流行方法,最后简要描述网络分析。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

SAREV: A review on statistical analytics of single-cell RNA sequencing data.

SAREV: A review on statistical analytics of single-cell RNA sequencing data.

Due to the development of next-generation RNA sequencing (NGS) technologies, there has been tremendous progress in research involving determining the role of genomics, transcriptomics and epigenomics in complex biological systems. However, scientists have realized that information obtained using earlier technology, frequently called 'bulk RNA-seq' data, provides information averaged across all the cells present in a tissue. Relatively newly developed single cell (scRNA-seq) technology allows us to provide transcriptomic information at a single-cell resolution. Nevertheless, these high-resolution data have their own complex natures and demand novel statistical data analysis methods to provide effective and highly accurate results on complex biological systems. In this review, we cover many such recently developed statistical methods for researchers wanting to pursue scRNA-seq statistical and computational research as well as scientific research about these existing methods and free software tools available for their generated data. This review is certainly not exhaustive due to page limitations. We have tried to cover the popular methods starting from quality control to the downstream analysis of finding differentially expressed genes and concluding with a brief description of network analysis.

求助全文
通过发布文献求助,成功后即可免费获取论文全文。 去求助
来源期刊
CiteScore
6.20
自引率
0.00%
发文量
31
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信