Acquisition, Processing, and Quality Control of Mass Cytometry Data

Brian H Lee; Adeeb H Rahman

doi:10.1007/978-1-4939-9454-0_2

Acquisition, Processing, and Quality Control of Mass Cytometry Data

Methods Mol Biol. 2019:1989:13-31. doi: 10.1007/978-1-4939-9454-0_2.

Authors

Brian H Lee¹, Adeeb H Rahman^{2

3}

Affiliations

¹ Human Immune Monitoring Center, Icahn School of Medicine at Mt. Sinai, New York, NY, USA.
² Human Immune Monitoring Center, Icahn School of Medicine at Mt. Sinai, New York, NY, USA. adeeb.rahman@mssm.edu.
³ Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mt. Sinai, New York, NY, USA. adeeb.rahman@mssm.edu.

PMID: 31077096
DOI: 10.1007/978-1-4939-9454-0_2

Abstract

Mass cytometry uniquely combines the principles of mass spectrometry and flow cytometry for high dimensional profiling of immune cells at a single cell level. Using isotopically conjugated antibodies, mass cytometry overcomes the limitations of spectral overlap associated with flow cytometry and allows for deeper single cell characterization of complex biospecimens using more cellular markers. However, the nature of mass spectrometry-based single cell measurements requires specific considerations in acquiring and processing data. This chapter provides an overview of how to optimally acquire mass cytometry data and how to process this data for subsequent analysis and characterization of cell populations.

Keywords: Barcoding; Data acquisition; Data processing; Mass cytometry; Normalization.

MeSH terms

Biomarkers / analysis*
Cells / cytology*
Flow Cytometry / methods*
Humans
Mass Spectrometry / methods*
Quality Control
Single-Cell Analysis / methods*
Staining and Labeling / methods*

Substances

Biomarkers