Table 1.

Main characteristics of the selected public DIA datasets for data reanalysis. Further details can be found in the ‘Data availability’ section.

Dataset Identifier	Analysis Type	Short Name	Dataset Size (MS runs)	Technical Replicates	Expression Atlas Accession Number
PXD00487354	Baseline	HCCpct	76	Available	E-PROT-69
PXD00067255	Differential	Digital Kidney	48	Not available	E-PROT-59
PXD00469156	Differential	Bank PrCa	224	Available	E-PROT-68
PXD01494357	Differential	Wylm	113	Not available	E-PROT-67
PXD00349758	Baseline	PrCa Regions	60	Available	E-PROT-66
PXD00458959	Baseline	PrCa Network	210	Not available	E-PROT-70
PXD01419460	Baseline	BraCa OFLM4	145	Available	E-PROT-72
PXD00353961	Baseline	NCI60	120	Not available	E-PROT-73
PXD00106462	Baseline	Plasma	240	Pooled sample replicates	E-PROT-60
PXD01091263	Baseline	DIATPA	42	Not available	E-PROT-71