AE	Array Express
CLI	Command Line Interface
DEA	Differential Expression Analysis
DEG	Differentially Expressed Gene
FDR	False Discovery Rate
GEO	Gene Expression Omnibus
GO	Gene Ontology
HUGO	Human Genome Organization
MA plot	Bland–Altman plot
NGS	Next-Generation Sequencing
PCA	Principal Component Analysis
PFP	Proportion of False Positives
QC	Quality Control
RMA	Robust Multichip Average