Chemicals, enzymes and other reagents
Formic acid	Sigma Aldrich/Merck	Cat # 64‐18‐6
Acetonitrile	Sigma Aldrich/Merck	Cat # 75‐05‐8
Trifluoroacetic acid	Sigma Aldrich/Merck	Cat # 76‐05‐1
Water, Optima™ LC/MS Grade	Fisher Chemical	Cat # W64
Lysyl‐Endopeptidase	Wako Chemicals	Cat # 129‐02541
Trypsin	Sigma Aldrich/Merck	Cat # T6576
Software
MaxQuant (1.6.7.0)	https://maxquant.org/	N/A
Perseus (1.6.7.0)	https://maxquant.org/perseus/	N/A
Jupyter Notebook	https://jupyter.org/	N/A
Other
384‐Well Plates	Eppendorf	Cat # 0030129547
Adhesive PCR Sealing Foil Sheets	Thermo Scientific	Cat # AB‐0626
Empore SPE SDB‐RPS disk	Sigma Aldrich/Merck	Cat # 66886‐U
iST' sample preparation kit	PreOmics GmbH	Cat # P.O. 00001
ThermoMixer®	Eppendorf	Cat # 460‐0223
NanoDrop™ One/OneC Microvolume UV‐Vis Spectrophotometer	Thermo Fisher	Cat # ND‐ONEC‐W
Concentrator plus	Eppendorf	Cat # F‐45‐48‐11
Mastercycler X50h	Eppendorf	Cat # 63160000
EASY‐nLC™ 1200 System	Thermo Fisher	Cat # LC140
EvoSep One	EvoSep	Cat # EV‐1000
EvoTip	EvoSep	Cat # EV‐2001
15 cm, 75 µm ID, 1.9 µm ID beads with 120A surface	EvoSep	Cat # EV‐1112
ZDV Emitter Sprayer 10 µm ID	Bruker Daltonik GmbH	Cat # 1865691
timsTOF Pro	Bruker Daltonik GmbH	N/A
timsTOF SCP	Bruker Daltonik GmbH	N/A
Column oven	Sonation lab solutions	Cat # PRSO‐V2