KMS Of Academy of mathematics and systems sciences, CAS
Model-based understanding of single-cell CRISPR screening | |
Duan, Bin1,2; Zhou, Chi1; Zhu, Chengyu1; Yu, Yifei1; Li, Gaoyang3,4; Zhang, Shihua5; Zhang, Chao1; Ye, Xiangyun6; Ma, Hanhui7; Qu, Shen1; Zhang, Zhiyuan8; Wang, Ping3,4; Sun, Shuyang8; Liu, Qi1,2 | |
2019-05-20 | |
发表期刊 | NATURE COMMUNICATIONS |
ISSN | 2041-1723 |
卷号 | 10页码:11 |
摘要 | The recently developed single-cell CRISPR screening techniques, independently termed Perturb-Seq, CRISP-seq, or CROP-seq, combine pooled CRISPR screening with single-cell RNA-seq to investigate functional CRISPR screening in a single-cell granularity. Here, we present MUSIC, an integrated pipeline for model-based understanding of single-cell CRISPR screening data. Comprehensive tests applied to all the publicly available data revealed that MUSIC accurately quantifies and prioritizes the individual gene perturbation effect on cell phenotypes with tolerance for the substantial noise that exists in such data analysis. MUSIC facilitates the single-cell CRISPR screening from three perspectives, i.e., prioritizing the gene perturbation effect as an overall perturbation effect, in a functional topic-specific way, and quantifying the relationships between different perturbations. In summary, MUSIC provides an effective and applicable solution to elucidate perturbation function and biologic circuits by a model-based quantitative analysis of single-cell-based CRISPR screening data. |
DOI | 10.1038/s41467-019-10216-x |
语种 | 英语 |
资助项目 | National Key Research and Development Program of China[2017YFC0908500] ; National Key Research and Development Program of China[2016YFC1303205] ; National Natural Science Foundation of China[61572361] ; Shanghai Rising-Star Program[16QA1403900] ; Shanghai Natural Science Foundation Program[17ZR1449400] ; Fundamental Research Funds for the Central Universities |
WOS研究方向 | Science & Technology - Other Topics |
WOS类目 | Multidisciplinary Sciences |
WOS记录号 | WOS:000468274900002 |
出版者 | NATURE PUBLISHING GROUP |
引用统计 | |
文献类型 | 期刊论文 |
条目标识符 | http://ir.amss.ac.cn/handle/2S8OKBNM/34712 |
专题 | 应用数学研究所 |
通讯作者 | Wang, Ping; Sun, Shuyang; Liu, Qi |
作者单位 | 1.Tongji Univ, Dept Endocrinol & Metab, Shanghai Peoples Hosp 10, Bioinformat Dept,Coll Life Sci, Shanghai, Peoples R China 2.Ninghai First Hosp, Dept Ophthalmol, Ninghai, Zhejiang, Peoples R China 3.Tongji Univ, Shanghai Peoples Hosp 10, Ctr Canc, Shanghai, Peoples R China 4.Tongji Univ, Sch Med, Shanghai, Peoples R China 5.Acad Math & Syst Sci, Inst Appl Math, Beijing, Peoples R China 6.Shanghai Jiao Tong Univ, Shanghai Chest Hosp, Shanghai, Peoples R China 7.ShanghaiTech Univ, Sch Life Sci & Technol, Shanghai, Peoples R China 8.Shanghai Jiao Tong Univ, Shanghai Peoples Hosp 9, Dept Oral & Maxillofacial Head Neck Oncol, Coll Stomatol,Sch Med, Shanghai, Peoples R China |
推荐引用方式 GB/T 7714 | Duan, Bin,Zhou, Chi,Zhu, Chengyu,et al. Model-based understanding of single-cell CRISPR screening[J]. NATURE COMMUNICATIONS,2019,10:11. |
APA | Duan, Bin.,Zhou, Chi.,Zhu, Chengyu.,Yu, Yifei.,Li, Gaoyang.,...&Liu, Qi.(2019).Model-based understanding of single-cell CRISPR screening.NATURE COMMUNICATIONS,10,11. |
MLA | Duan, Bin,et al."Model-based understanding of single-cell CRISPR screening".NATURE COMMUNICATIONS 10(2019):11. |
条目包含的文件 | 条目无相关文件。 |
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