. 2024 Apr 25;11(3):e200230. doi: 10.1212/NXI.0000000000200230

Table 3.

Peptide Ratios Measured by PRM in the Verification Cohort

Protein	Peptide sequence	p Value	NINDC vs CTRL	PINDC vs CTRL	INDC vs CTRL	ION vs CTRL	SC-CIS vs CTRL	FC-CIS vs CTRL	RRMS vs CTRL	PPMS vs CTRL	RRMS vs INDC	RRMS vs NINDC	RRMS vs ION	RRMS vs SC-CIS	RRMS vs FC-CIS	RRMS vs PPMS	SC-CIS vs FC-CIS
CD138_1^a	EGEAVVLPEVEPGLTA(R)	<0.0001	1.00	1.10	1.13	1.02	2.02*	2.11*	2.70***	2.29*	2.38***	2.70***	2.65***	1.33	1.28	1.18	1.04
CD27_1^a	HCNSGLLV(R)	<0.0001	1.32	1.35	3.66	1.19	5.63**	6.61***	10.64***	5.16*	2.91	8.06***	8.96***	1.89	1.61	2.06	1.17
CECR1_1^a	LLPVYELSGEHHDEEWSV(K)	<0.0001	1.55	1.50	2.30*	0.85	2.19*	1.70*	2.64***	1.44	1.15	1.70*	3.11***	1.20	1.55	1.83 *	0.78
CECR1_2^a	SQVFNIL(R)	<0.0001	1.64	1.68	2.50*	0.83	2.08	1.99	3.01***	1.67	1.21	1.84	3.61***	1.45	1.51	1.81 *	0.96
CHI3L2_1^a	LLLTAGVSAG(R)	<0.0001	1.80	1.30	2.69**	1.18	1.76	1.84*	2.90***	1.80	1.08	1.61	2.46***	1.64	1.57	1.61	1.05
CH3IL2_2^a	GPSSYYNVEYAVGYWIH(K)	<0.0001	2.01	1.31	2.61	1.05	2.29	1.90	3.95***	1.98	1.51	1.96	3.74***	1.72	2.08	1.99	0.83
CHI3L1_1^a	ILGQQVPYAT(K)	<0.0001	2.11	1.91	2.63**	0.92	1.25	1.26	2.38***	2.00	0.91	1.13	2.58***	1.90	1.89	1.19	1.01
CHI3L1_3^a	LVCYYTSWSQY(R)	0.0002	2.60	1.64	1.62	0.58	1.15	1.30	2.46**	1.53	1.52	0.95	4.22***	2.14	1.90	1.61	1.13
CHIT1_1^a	VGAPATGSGTPGPFT(K)	<0.0001	4.88 *	2.14	2.29	1.29	2.98	6.68***	9.82***	4.92	4.30	2.01	7.64***	3.30	1.47	2.00	2.25
CHIT1_3^a	DNQWVGFDDVESF(K)	<0.0001	3.25	3.49	4.36	1.88	3.32	5.28**	6.03***	4.35	1.38	1.85	3.20***	1.81	1.14	1.39	1.59
IGKC_1^a	SGTASVVCLLNNFYP(R)	<0.0001	1.74	1.30	1.62	1.71	3.69	3.81	4.77***	3.40	2.94*	2.74**	2.79**	1.29	1.25	1.40	1.03
IGKC_2^a	VDNALQSGNSQESVTEQDS(K)	<0.0001	1.16	1.41	1.56	1.30	2.74**	2.62**	4.54***	2.92*	2.92**	3.91***	3.50***	1.66	1.73	1.55	0.96
CFHR1_3^b	INHGILYDEE(K)	0.0650	1.25	1.89 *	1.19	1.16	0.90	0.83	0.82	1.17	0.68	0.65	0.70	0.91	0.98	0.69	0.93
RELN_2^b	VIVLLPQ(K)	0.4867	0.70	1.19	1.03	1.34	1.16	0.98	0.90	1.35	0.87	1.29	0.67	0.77	0.92	0.66	0.84
LYZ_1^c	WESGYNT(R)	<0.0001	1.20	1.24	2.03	0.58	0.89	0.83	1.43	0.84	0.70	1.19	2.45***	1.60	1.73	1.70 *	0.93
NGAL_1^c	SYPGLTSYLV(R)	0.0154	1.27	1.32	1.55*	0.93	0.94	0.90	1.10	1.02	0.71	0.87	1.18	1.18	1.23	1.08	0.96

Fold changes among the different group comparisons of the 16 peptides quantified by PRM in the verification cohort. Statistical difference between the different cohorts was assessed by the Kruskal-Wallis test (p values for each peptide listed in column 3) followed by the Dunn multiple comparison test (*p value <0.05; **p-value <0.01; ***p value <0.001) using GraphPad PRISM 10.1.0. ^a and ^b indicate peptides originating from proteins identified as significant in CSF proteomic analysis comparing CTRL with RRMS and FC-CIS with SC-CIS, respectively. ^c indicates proteins identified as significant upon TNFα exposure in OPC secretome analysis (see also eTable 4).