Table 1.

Summary of the results for differential expression and co-regulation analyses

Group	Category	Cutoffs for filtering	LG versus N	HG versus N	HG versus LG
Individual proteins	Total	Quantified in all samples	3642	3642	3642
	Differential	q < 0.05; |Log2FC| > 0.5	197	309	33
	Up	q < 0.05; Log2FC > 0.5	54a	94b	4
	Down	q < 0.05; Log2FC < − 0.5	143c	215c	29
CORUM complexes for differential expression analysis	Total	Quantified subunits ≥ 2; subunit coverage ≥ 50%	852	852	852
	Differential	q < 0.05; |Log2FC| > 0.31	54	85	6
	Up	q < 0.05; log2FC > 0.31	7	34d	1
	Down	q < 0.05; Log2FC <  − 0.31	47e	51e	5
CORUM complexes for differential co-regulation analysis	Total	Quantified subunits ≥ 2; subunit coverage ≥ 50%; PPI coverage ≥ 50%	475	475	475
	Differential	q < 0.05; |mean Z score difference| > 0.7	28	22	22
	Up	q < 0.05; mean Z score difference > 0.7	20f	17g	10
	Down	q < 0.05; mean Z score difference <  − 0.7	8	5	12

^aForm three small PPI networks

^bForm a large PPI network in cytoplasm and nucleus

^cForm a large PPI network mainly in extracellular space, plasma membrane, and cytoplasm

^dFour ProTα complexes are involved in the negative regulation of apoptotic process (GO:0043066)

^eThirteen integrin protein complexes are involved in cell adhesion (GO:0007155)

^fEleven protein complexes are nuclear complexes, of which six are involved in RNA splicing (GO:0008380)

^gFour subcomplexes of mitochondrial complex I are involved in oxidative phosphorylation (GO:0006818)