REAGENT or RESOURCE	SOURCE	IDENTIFIER
Biological samples
Human Plasma	Diabetes Autoimmunity Study in the Young (DAISY)	https://medschool.cuanschutz.edu/barbara-davis-center-for-diabetes/research/clinical-epidemiology/daisy-research
Chemicals, peptides, and recombinant proteins
Custom Synthesized Heavy Isotope-Labeled Peptides	New England Peptides, now Vivitide	N/A
Acetonitrile, HPLC grade	J.T. Baker	9829–03
Acetonitrile anhydrous	Sigma - Aldrich	271004
Ammonium hydroxide solution	Sigma - Aldrich	338818
Buffer A for Multiple Affinity Removal LC Column	Agilent	5185–5987
Buffer B for Multiple Affinity Removal LC Column	Agilent	5185–5988
Chloroform	Sigma - Aldrich	C2432
Dithiothreitol	Thermo Scientific	20291
Ethylenediaminetetraacetic acid	Sigma - Aldrich	E7889
Formic acid	Sigma - Aldrich	33015
Iodoacetamide	Thermo Scientific	90034
HPLC Grade Water	J.T. Baker	4218–03
Hydroxylamine Solution 50%	Sigma - Aldrich	467804
Methanol, HPLC grade	Fluka	34966
Sequencing grade modified trypsin	Promega	V5117
ris (hydroxymethyl)aminomethane hydrochloride pH 8.0	Sigma - Aldrich	T2694
Trifluoroacetic acid	Sigma - Aldrich	91707
Urea	Sigma - Aldrich	U0631
Critical commercial assays
8-plex iTRAQ kit	Applied Biosystems	4390811
Bb Plus Fragment	Quidel	A027
SC5b-9 Plus EIA	Quidel	A020
C3a Plus EIA	Quidel	A031
Milliplex Human Complement Panel 1	Millipore-Sigma	HCMP1MAG-19K
Milliplex Human Complement Panel 1	Millipore-Sigma	HCMP2MAG-19K
Deposited data
SRM mass spectrometry data	MassIVE	MSV000090848
SRM and Exsera processed data	DataHub	https://doi.org/10.25584/2229135 https://data.pnnl.gov/group/nodes/dataset/33588
Software and algorithms
R package (v3.2.3)	The R Project for Statistical Computing	https://www.r-project.org/
MATLAB 2019a	Mathworks Inc.	https://www.mathworks.com/products/matlab.html
Q4SRM	Pacific Northwest National Laboratory	https://github.com/PNNL-Comp-Mass-Spec
Skyline	University of Washington	https://skyline.ms/
xPONENT 4.2	Luminex	MAGPX16340721
Gen 5 3.11.19	BioTek	1608102
Other
Reversed phase tC18 SepPak SPE columns	Waters	WAT054925
3-kDa MWCO Amicon centrifugal filters	Millipore	UFC5003BK
Reversed phase tC18 SepPak SPE columns	Waters	WAT054925