MS	Mass spectrometry
FDR	False discovery rate
AP-MS	Affinity purification-mass spectrometry
DIA	Data-independent acquisition
PTM	Posttranslational modifications
LC-MS/MS	Liquid-chromatography coupled with tandem mass spectrometry
MALDI IMS	Matrix-assisted laser desorption/ionization imaging mass spectrometry
PSEA	Protein set enrichment analysis
GSEA	Gene set enrichment analysis
VSN	Variance stabilization normalization
HMM	Hidden Markov model
SVM	Support vector machines
LIMMA	Linear Models for Microarray Data
PSM	peptide spectrum match
ICAT	Isotope coded affinity tag
ICPL	isotope coded protein labeling
SILAC	stable isotope labeling by amino acids in cell culture
PPI	Protein-protein interaction