Normalizing single-cell RNA sequencing data with internal spike-in-like genes

doi:10.1093/nargab/lqaa059

	Normalizing single-cell RNA sequencing data with internal spike-in-like genes
	Lin, Li; Song, Minfang; Jiang,Yong; Zhao,Xiaojing; Zhang,Liye
	2020-09
发表期刊	NAR GENOMICS AND BIOINFORMATICS
ISSN	2631-9268
发表状态	已发表
DOI	10.1093/nargab/lqaa059
摘要	Normalization with respect to sequencing depth is a crucial step in single-cell RNA sequencing preprocessing. Most methods normalize data using the whole transcriptome based on the assumption that the majority of transcriptome remains constant and are unable to detect drastic changes of the transcriptome. Here, we develop an algorithm based on a small fraction of constantly expressed genes as internal spike-ins to normalize single cell RNA sequencing data. We demonstrate that the transcriptome of single cells may undergo drastic changes in several case study datasets and accounting for such heterogeneity by ISnorm improves the performance of downstream analyzes.
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收录类别	ESCI
引用统计
文献类型	期刊论文
条目标识符	https://kms.shanghaitech.edu.cn/handle/2MSLDSTB/123367
专题	生命科学与技术学院_硕士生生命科学与技术学院_PI研究组_张力烨组生命科学与技术学院_PI研究组_孙建龙组生命科学与技术学院_博士生
共同第一作者	Song, Minfang
通讯作者	Lin, Li; Zhang,Liye
作者单位	ShanghaiTech University
第一作者单位	上海科技大学
通讯作者单位	上海科技大学
第一作者的第一单位	上海科技大学
推荐引用方式 GB/T 7714	Lin, Li,Song, Minfang,Jiang,Yong,et al. Normalizing single-cell RNA sequencing data with internal spike-in-like genes[J]. NAR GENOMICS AND BIOINFORMATICS,2020.
APA	Lin, Li,Song, Minfang,Jiang,Yong,Zhao,Xiaojing,&Zhang,Liye.(2020).Normalizing single-cell RNA sequencing data with internal spike-in-like genes.NAR GENOMICS AND BIOINFORMATICS.
MLA	Lin, Li,et al."Normalizing single-cell RNA sequencing data with internal spike-in-like genes".NAR GENOMICS AND BIOINFORMATICS (2020).