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人类皮肤细胞图谱共识和单细胞数据标准化路线图。

A Roadmap for a Consensus Human Skin Cell Atlas and Single-Cell Data Standardization.

机构信息

Department of Mathematics, University of California, Irvine, Irvine, California, USA; NSF-Simons Center for Multiscale Cell Fate Research, University of California, Irvine, Irvine, California, USA.

Department of Cell and Molecular Biology, Karolinska Institute, Stockholm, Sweden.

出版信息

J Invest Dermatol. 2023 Sep;143(9):1667-1677. doi: 10.1016/j.jid.2023.03.1679.

Abstract

Single-cell technologies have become essential to driving discovery in both basic and translational investigative dermatology. Despite the multitude of available datasets, a central reference atlas of normal human skin, which can serve as a reference resource for skin cell types, cell states, and their molecular signatures, is still lacking. For any such atlas to receive broad acceptance, participation by many investigators during atlas construction is an essential prerequisite. As part of the Human Cell Atlas project, we have assembled a Skin Biological Network to build a consensus Human Skin Cell Atlas and outline a roadmap toward that goal. We define the drivers of skin diversity to be considered when selecting sequencing datasets for the atlas and list practical hurdles during skin sampling that can result in data gaps and impede comprehensive representation and technical considerations for tissue processing and computational analysis, the accounting for which should minimize biases in cell type enrichments and exclusions and decrease batch effects. By outlining our goals for Atlas 1.0, we discuss how it will uncover new aspects of skin biology.

摘要

单细胞技术已成为推动基础和转化性皮肤科研究发现的关键。尽管有大量可用的数据集,但仍然缺乏一个正常人类皮肤的中央参考图谱,这个图谱可以作为皮肤细胞类型、细胞状态及其分子特征的参考资源。为了使这样的图谱得到广泛认可,在图谱构建过程中需要许多研究人员的参与,这是一个基本的前提条件。作为人类细胞图谱项目的一部分,我们已经组建了皮肤生物学网络,以构建一个共识的人类皮肤细胞图谱,并概述实现这一目标的路线图。我们定义了在为图谱选择测序数据集时需要考虑的皮肤多样性驱动因素,并列出了在皮肤采样过程中可能导致数据缺口并阻碍全面代表性和组织处理及计算分析技术考虑的实际障碍,考虑到这些因素应该可以最小化细胞类型富集和排除的偏差,并减少批次效应。通过概述我们对 Atlas 1.0 的目标,我们讨论了它将如何揭示皮肤生物学的新方面。

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