Mass Cytometry pp 267-279 | Cite as

Analysis of Mass Cytometry Data

  • Christina B. Pedersen
  • Lars R. OlsenEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 1989)


The CyTOF system produces single cell protein expression data similar to that from flow cytometry, but with an increased number of features measured. Traditionally, analysis of these data is carried out using manual gating, but with the increased dimensionality, manual gating becomes a suboptimal analysis strategy in some cases. To address this, a number of data analysis tools for tasks such as clustering, differential abundance analysis, and visualization have been developed and made freely available. We here introduce some of the more popular tools for CyTOF analysis and exemplify their utility in a common analysis workflow.

Key words

Mass cytometry Dimensionality reduction Clustering Differential expression 


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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Department of Health TechnologyTechnical University of DenmarkLyngbyDenmark

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