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Harnessing agent-based frameworks in CellAgentChat to unravel cell-cell interactions from single-cell and spatial transcriptomics.利用CellAgentChat中基于代理的框架从单细胞和空间转录组学中解析细胞间相互作用。
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本文引用的文献

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Dirichlet Process Mixture Model for Correcting Technical Variation in Single-Cell Gene Expression Data.用于校正单细胞基因表达数据中技术变异的狄利克雷过程混合模型
JMLR Workshop Conf Proc. 2016;48:1070-1079.
2
Quantitative Analysis of Synthetic Cell Lineage Tracing Using Nuclease Barcoding.使用核酸酶条形码技术对合成细胞谱系追踪进行定量分析。
ACS Synth Biol. 2017 Jun 16;6(6):936-942. doi: 10.1021/acssynbio.6b00309. Epub 2017 Mar 10.
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Power analysis of single-cell RNA-sequencing experiments.单细胞 RNA 测序实验的功效分析。
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Recent progress in single-cell cancer genomics.单细胞癌症基因组学的最新进展。
Curr Opin Genet Dev. 2017 Feb;42:22-32. doi: 10.1016/j.gde.2017.01.002. Epub 2017 Jan 23.
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Pooled CRISPR screening with single-cell transcriptome readout.结合单细胞转录组读数的CRISPR筛选。
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Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq.通过将 CRISPR 池筛选与单细胞 RNA-Seq 相结合来解析免疫回路。
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A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response.一个多重单细胞CRISPR筛选平台能够对未折叠蛋白反应进行系统剖析。
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Rapidly evolving homing CRISPR barcodes.快速进化的归巢CRISPR条形码。
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Revealing the vectors of cellular identity with single-cell genomics.利用单细胞基因组学揭示细胞身份的载体。
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单细胞分析中的挑战与新方向

Challenges and emerging directions in single-cell analysis.

作者信息

Yuan Guo-Cheng, Cai Long, Elowitz Michael, Enver Tariq, Fan Guoping, Guo Guoji, Irizarry Rafael, Kharchenko Peter, Kim Junhyong, Orkin Stuart, Quackenbush John, Saadatpour Assieh, Schroeder Timm, Shivdasani Ramesh, Tirosh Itay

机构信息

Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute, Boston, MA, USA.

Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA, USA.

出版信息

Genome Biol. 2017 May 8;18(1):84. doi: 10.1186/s13059-017-1218-y.

DOI:10.1186/s13059-017-1218-y
PMID:28482897
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC5421338/
Abstract

Single-cell analysis is a rapidly evolving approach to characterize genome-scale molecular information at the individual cell level. Development of single-cell technologies and computational methods has enabled systematic investigation of cellular heterogeneity in a wide range of tissues and cell populations, yielding fresh insights into the composition, dynamics, and regulatory mechanisms of cell states in development and disease. Despite substantial advances, significant challenges remain in the analysis, integration, and interpretation of single-cell omics data. Here, we discuss the state of the field and recent advances and look to future opportunities.

摘要

单细胞分析是一种快速发展的方法,用于在单个细胞水平上表征基因组规模的分子信息。单细胞技术和计算方法的发展使得对广泛组织和细胞群体中的细胞异质性进行系统研究成为可能,从而为发育和疾病中细胞状态的组成、动态和调控机制提供了新的见解。尽管取得了重大进展,但在单细胞组学数据的分析、整合和解释方面仍存在重大挑战。在这里,我们讨论该领域的现状和最新进展,并展望未来的机遇。