Automated flow cytometric identification of disease-specific cells by the ECLIPSE algorithm

Scientific Reports
Rita FolcarelliJeroen J Jansen

Abstract

Multicolor Flow Cytometry (MFC)-based gating allows the selection of cellular (pheno)types based on their unique marker expression. Current manual gating practice is highly subjective and may remove relevant information to preclude discovery of cell populations with specific co-expression of multiple markers. Only multivariate approaches can extract such aspects of cell variability from multi-dimensional MFC data. We describe the novel method ECLIPSE (Elimination of Cells Lying in Patterns Similar to Endogeneity) to identify and characterize aberrant cells present in individuals out of homeostasis. ECLIPSE combines dimensionality reduction by Simultaneous Component Analysis with Kernel Density Estimates. A Difference between Densities (DbD) is used to eliminate cells in responder samples that overlap in marker expression with cells of controls. Thereby, subsequent data analyses focus on the immune response-specific cells, leading to more informative and focused models. To prove the power of ECLIPSE, we applied the method to study two distinct datasets: the in vivo neutrophil response induced by systemic endotoxin challenge and in studying the heterogeneous immune-response of asthmatics. ECLIPSE described the well-characterized ...Continue Reading

References

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Citations

May 10, 2019·International Journal of Laboratory Hematology·Sebastiano Montante, Ryan R Brinkman
Jun 18, 2020·Scientific Reports·Rita FolcarelliJeroen J Jansen
Feb 20, 2021·Cytometry. Part a : the Journal of the International Society for Analytical Cytology·Melissa CheungJon Petzing
Jul 31, 2021·Cytometry. Part a : the Journal of the International Society for Analytical Cytology·Rita FolcarelliOscar F van den Brink

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Methods Mentioned

BETA
Flow Cytometry
PCA
FACS

Clinical Trials Mentioned

NCT01374711

Software Mentioned

ECLIPSE
SCA
Citrus
ECLISPE
FLOOD
MATLAB®R2016b
viSNE
Cytometry
SPADE

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