. 2022 May 25;94(22):7779–7786. doi: 10.1021/acs.analchem.1c05266

Table 1. Overview of Analyzed Datasets.

sample	crosslinker	acquisition method	variable modifications used in reanalysis	# MS2 spectra	PRIDE accession	ref
E. coli lysate	DSSO	stepped HCD (sHCD)	oxidation (M), methylation (D, E), deamidation (N, Q), BS3/DSSO −OH; −NH₂ (K, nterm)	3,469,500	PXD019120	(4)
E. coli lysate	BS3	stepped HCD (sHCD)		3,817,562	PXD019120	(4)
Mus musculus synaptosomes	DSSO	CID-MS2-MS3 + ETD-MS2	DSSO −OH; −NH₂ (K, nterm)	2,925,993	PXD010317	(15)
Mus musculus synaptosomes	DSSO	CID-MS2-MS3 + ETD-MS2	DSSO −OH; −NH₂ (K, nterm)	2,925,993	PXD015160	(15)
E. coli 70S ribosome	DSSO	stepped HCD (sHCD)	DSSO −OH; −NH₂ (K, nterm)	128,152	PXD011861	(13)
E. coli 70S ribosome	DSSO	CID-MS2-HCD-MS3	DSSO −OH; −NH₂ (K, nterm)	44,436	PXD011861	(13)
Drosophila melanogaster extract	DSBU	stepped HCD (sHCD)	DSBU −OH; −NH₂ (K, nterm)	3,390,787	PXD012546	(2)