.png){kind=icon}
返回
scPerturb: harmonized single-cell perturbation data
.png){kind=icon}
OA
AI
DOI：10.1038/s41592-023-02144-y.png)
.png){kind=icon}
原文求助.png){kind=icon}
分享.png){kind=icon}
收藏
摘要
En 中文
Analysis across a growing number of single-cell perturbation datasets is hampered by poor data interoperability. To facilitate development and benchmarking of computational methods, we collect a set of 44 publicly available single-cell perturbation-response datasets with molecular readouts, including transcriptomics, proteomics and epigenomics. We apply uniform quality control pipelines and harmonize feature annotations. The resulting information resource, scPerturb, enables development and testing of computational methods, and facilitates comparison and integration across datasets. We describe energy statistics (E-statistics) for quantification of perturbation effects and significance testing, and demonstrate E-distance as a general distance measure between sets of single-cell expression profiles. We illustrate the application of E-statistics for quantifying similarity and efficacy of perturbations. The perturbation-response datasets and E-statistics computation software are publicly available at scperturb.org. This work provides an information resource for researchers working with single-cell perturbation data and recommendations for experimental design, including optimal cell counts and read depth. scPerturb is an information resource for single-cell perturbation data analysis and comparison.
Keyword:
CHROMATIN ACCESSIBILITY
SEQ
MECHANISMS
CIRCUITS
SCREENS
期刊
IF:
32.1
论文数:
7.3K
被引数:
12.7W
机构
引用论文
High-throughput single-cell chromatin accessibility CRISPR screens enable unbiased identification of regulatory networks in cancer.png)
NATURE COMMUNICATIONS
OAAI
NATURE COMMUNICATIONSIF15.7
OAAI分享收藏Side-Channel Analysis of Weierstrass and Koblitz Curve ECDSA on Android SmartphonesAndroid智能手机上的Weierstrass和Koblitz曲线ECDSA的侧通道分析
PREAI
分享收藏LINCS Data Portal 2.0: next generation access point for perturbation-response signaturesLINCS数据门户2.0: 扰动响应签名的下一代接入点NUCLEIC ACIDS RESEARCHOAAI
NUCLEIC ACIDS RESEARCHIF13.1
OAAI分享收藏Scalable genetic screening for regulatory circuits using compressed Perturb-seq使用压缩扰动序列对调节电路进行可扩展的遗传筛选NATURE BIOTECHNOLOGYOAAI
NATURE BIOTECHNOLOGYIF41.7
OAAI分享收藏
查看更多内容