Table I. 25 most significant differentially expressed proteins in PLGEM-StN analysis.

The 25 most significant differentially expressed proteins in PLGEM-StN analysis (FDR-adjusted p value <0.001) are shown. Original spectral counts in 12 samples and FDR-adjusted p values in EA versus LT, EA versus PR, and LT versus PR comparisons are also included. Bold values indicate they are also significant in the Qspec result. Pro ID, protein identity.

AGS Pro ID	ENSEMBL Pro ID	Gene symbol	UPCa	PCb	EA1	EA2	EA3	EA4	LT1	LT2	LT3	LT5	PR1	PR2	PR4	PR7	p valuec EA vs. LT	p value EA vs. PR	p value LT vs. PR
				%
AGS_1431	ENSSTOP00000004452	ABAT	12	60	16	22	19	18	11	2	7	14	29	41	48	23	1.13e−02	3.17e−03	7.01e−04
AGS_11191	ENSSTOP00000005420	ACLY	21	26	5	11	1	0	0	0	2	0	10	47	23	12	4.51e−03	4.63e−04	5.79e−04
AGS_5977	ENSSTOP00000007189	ADFP	8	27	5	8	8	6	4	2	5	2	0	0	0	0	4.86e−02	7.28e−05	4.16e−03
AGS_590	ENSSTOP00000003215	AKR1C3	17	71	33	95	28	59	63	39	79	77	77	201	132	61	5.89e−02	2.38e−04	3.43e−03
AGS_5442	ENSSTOP00000000753	AKR1D1	5	37	3	2	0	2	7	3	4	3	11	6	9	2	5.88e−03	5.26e−04	7.07e−02
AGS_15305	None	ALB	26	79	111	109	143	142	238	179	314	258	81	124	86	77	2.98e−04	1.85e−01	3.21e−04
AGS_13709	ENSSTOP00000006409	AOX1	27	31	5	24	1	8	1	0	3	17	37	49	32	36	5.82e−02	7.94e−04	1.21e−03
AGS_15506	None	ARHGDIB	5	45	2	3	5	4	0	0	1	0	2	5	0	5	4.57e−04	9.50e−01	3.19e−03
AGS_1099	ENSSTOP00000007259	BANF1	3	40	6	5	5	4	1	2	0	2	0	0	1	3	1.42e−03	8.21e−04	4.56e−01
AGS_14254	ENSSTOP00000005260	BHMT	16	41	42	116	39	36	28	29	110	79	89	183	68	88	3.21e−01	9.20e−04	3.69e−03
AGS_15328	None	CYP3A5	10	50	20	9	7	11	2	5	8	9	24	17	41	15	1.79e−02	2.12e−03	7.78e−04
AGS_2065	ENSSTOP00000004232	FABP1	11	84	252	103	206	162	185	114	205	351	33	100	39	103	3.11e−02	1.09e−04	4.96e−05
AGS_931	ENSSTOP00000009235	FASN	48	25	87	104	29	17	9	10	74	35	92	191	163	91	2.82e−02	1.65e−03	8.90e−04
AGS_8158	ENSSTOP00000004030	GNG12	3	57	2	1	0	0	1	2	1	4	4	3	2	3	5.72e−03	5.03e−04	6.88e−02
AGS_2985	ENSSTOP00000013949	H3F3B	4	56	4	7	16	14	4	7	0	3	3	1	6	0	3.38e−03	8.07e−04	1.78e−01
AGS_7005	ENSSTOP00000003811	HAO2	5	16	5	6	4	2	0	0	0	1	0	0	5	0	4.47e−04	1.22e−02	2.67e−02
AGS_16132	None	HBB	12	73	112	143	244	229	444	359	172	180	205	133	182	229	1.75e−04	4.40e−02	2.65e−03
AGS_18963	None	HBE1	2	16	2	13	25	17	43	46	16	4	19	11	20	19	7.54e−04	3.05e−02	1.94e−02
AGS_17287	None	HSD3B2	3	17	1	1	2	1	4	4	2	3	10	3	5	4	4.47e−03	3.97e−04	5.92e−02
AGS_17578	None	MTCH2	7	48	8	9	6	8	2	0	2	2	5	4	5	5	7.61e−04	1.27e−01	9.86e−03
AGS_7129	ENSSTOP00000002574	NUTF2	4	63	4	4	4	2	0	0	1	1	2	2	2	0	5.33e−04	2.95e−02	1.94e−02
AGS_7834	ENSSTOP00000005555	PNPO	4	21	4	1	2	9	2	3	2	5	1	0	0	0	2.41e−01	4.76e−04	7.32e−03
AGS_1897	ENSSTOP00000009373	PTMA	5	37	12	19	11	7	0	3	5	3	5	2	4	9	3.14e−04	7.76e−03	2.72e−02
AGS_15424	None	RPL14	5	27	5	9	11	17	3	2	2	1	2	3	7	2	8.44e−04	5.04e−03	1.24e−01

^a Unique peptide counts.

^b Peptide coverage.

^c p value, FDR-adjusted p value.