A practical handbook on single-cell RNA sequencing data quality control and downstream analysis

Gyeong Dae Kim; Chaemin Lim; Jihwan Park

doi:10.1016/j.mocell.2024.100103

A practical handbook on single-cell RNA sequencing data quality control and downstream analysis

Mol Cells. 2024 Sep;47(9):100103. doi: 10.1016/j.mocell.2024.100103. Epub 2024 Jul 31.

Authors

Gyeong Dae Kim¹, Chaemin Lim¹, Jihwan Park²

Affiliations

¹ School of Life Sciences, Gwangju Institute of Science and Technology (GIST), Gwangju 61005, Republic of Korea.
² School of Life Sciences, Gwangju Institute of Science and Technology (GIST), Gwangju 61005, Republic of Korea. Electronic address: [email protected].

Abstract

Advancements in single-cell analysis have facilitated high-resolution observation of the transcriptome in individual cells. However, standards for obtaining high-quality cells and data analysis pipelines remain variable. Here, we provide the groundwork for improving the quality of single-cell analysis by delineating guidelines for selecting high-quality cells and considerations throughout the analysis. This review will streamline researchers' access to single-cell analysis and serve as a valuable guide for analysis.

Keywords: Downstream analysis; Quality control; Single-cell RNA sequencing.

Publication types

Review
Letter

MeSH terms

Humans
Quality Control*
Sequence Analysis, RNA* / methods
Single-Cell Analysis* / methods
Single-Cell Analysis* / standards