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迈向植物细胞图谱的数据基础设施。

Toward a data infrastructure for the Plant Cell Atlas.

机构信息

Donald Danforth Plant Science Center, Saint Louis, Missouri 63132, USA.

Bioinformatics and Computational Biology Program, Department of Animal Science, Iowa State University, Ames, Iowa 50011, USA.

出版信息

Plant Physiol. 2023 Jan 2;191(1):35-46. doi: 10.1093/plphys/kiac468.

Abstract

We review how a data infrastructure for the Plant Cell Atlas might be built using existing infrastructure and platforms. The Human Cell Atlas has developed an extensive infrastructure for human and mouse single cell data, while the European Bioinformatics Institute has developed a Single Cell Expression Atlas, that currently houses several plant data sets. We discuss issues related to appropriate ontologies for describing a plant single cell experiment. We imagine how such an infrastructure will enable biologists and data scientists to glean new insights into plant biology in the coming decades, as long as such data are made accessible to the community in an open manner.

摘要

我们回顾了如何使用现有基础设施和平台来构建植物细胞图谱的数据基础设施。人类细胞图谱已经为人类和小鼠单细胞数据开发了广泛的基础设施,而欧洲生物信息学研究所则开发了单细胞表达图谱,目前包含了几个植物数据集。我们讨论了与描述植物单细胞实验的适当本体相关的问题。我们设想,只要以开放的方式向社区提供这些数据,这种基础设施将使生物学家和数据科学家在未来几十年中能够深入了解植物生物学。

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Toward a data infrastructure for the Plant Cell Atlas.迈向植物细胞图谱的数据基础设施。
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Integrated analysis of multimodal single-cell data.多模态单细胞数据的综合分析。
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Computational principles and challenges in single-cell data integration.单细胞数据整合的计算原理与挑战。
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