TY - JOUR
T1 - Protocol for large scale whole blood immune monitoring by mass cytometry and Cyto Quality Pipeline
AU - Rybakowska, Paulina
AU - Van Gassen, Sofie
AU - Martorell Marugán, Jordi
AU - Quintelier, Katrien
AU - Saeys, Yvan
AU - Alarcón-Riquelme, Marta E.
AU - Marañón, Concepción
N1 - Publisher Copyright:
© 2022 The Author(s)
PY - 2022/12
Y1 - 2022/12
N2 - 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).
AB - 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).
UR - http://www.scopus.com/inward/record.url?scp=85140970403&partnerID=8YFLogxK
U2 - 10.1016/j.xpro.2022.101697
DO - 10.1016/j.xpro.2022.101697
M3 - Article
C2 - 36353363
AN - SCOPUS:85140970403
SN - 2666-1667
VL - 3
JO - STAR Protocols
JF - STAR Protocols
IS - 4
M1 - 101697
ER -