Publication:
Protocol for large scale whole blood immune monitoring by mass cytometry and Cyto Quality Pipeline.

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Date

2022-10-31

Authors

Rybakowska, Paulina
Van Gassen, Sofie
Martorell Marugán, Jordi
Quintelier, Katrien
Saeys, Yvan
Alarcón-Riquelme, Marta E
Marañón, Concepción

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Abstract

Mass cytometry (MC) is a powerful large-scale immune monitoring technology. To maximize MC data quality, we present a protocol for whole blood analysis together with an R package, Cyto Quality Pipeline (CytoQP), which minimizes the experimental artifacts and batch effects to ensure data reproducibility. We describe the steps to stimulate, fix, and freeze blood samples before acquisition to make them suitable for retrospective studies. We then detail the use of barcoding and reference samples to facilitate multicenter and multi-batch experiments. For complete details on the use and execution of this protocol, please refer to Rybakowska et al. (2021a) and (2021b).

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Monitoring, Immunologic
Flow Cytometry
Reproducibility of Results
Retrospective Studies
Leukocytes, Mononuclear
Multicenter Studies as Topic

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Clinical protocol, Flow cytometry/Mass cytometry, Immunology

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